Google's S2 Library for Geometry on the Sphere

Functions for University of Auckland Course STATS 201/208 Data Analysis

Set of Common Tools for Forecast Verification

Spatial Two Stage Least Squares Estimation

Enhanced S3 Programming

Biclustering via Sparse Singular Value Decomposition Incorporating Stability Selection

S4 implementation of vectors and lists

Somatic Copy Number Alteration Analysis Using Sequencing and SNP Array Data

Sabermetrics Functions for Baseball Analytics

Multivariate Generalized Linear Mixed Models

Semiparametric Analysis of Changepoint

Detection of Fixations in Eye-Tracking Data

SA Counterparty Credit Risk under Basel III

Self-Adjusting COBRA

Stability Analysis in Differentially Expressed Genes

Species Abundance Distributions with Independent-Species Assumption

Some Additional Distributions

Maximum Likelihood Models for Species Abundance Distributions

Small Area Estimation

Stochastic Approximation Expectation Maximization (SAEM) algorithm

A Stacked Autoencoder Implementation with Interface to 'neuralnet'

Robust Small Area Estimation

Small Area Estimation for Rao and Yu Model

Simulation Tools for Small Area Estimation

Statistical Analysis of Fuzzy Data

Significance Analysis of Function and Expression

Generalized and Safe-Bayesian Ridge and Lasso Regression

Safe Binary Regression

A Toolbox for the Analysis of Proteomics Data

Encrypt and Decrypt Strings, R Objects and Files

Sensitivity Analysis for Functional Input

Software for the Analysis of Genetic Architecture

Collection of functions for reading and comparing SAGE libraries

Statistical Analysis of the GeneChip

Akaike Information Criterion for Sparse Estimation

Elastic Net and (Adaptive) Lasso Penalized Sparse Asymmetric Least Squares (SALES) and Coupled Sparse Asymmetric Least Squares (COSALES) using Coordinate Descent and Proximal Gradient Algorithms

Efficient Sampling on the Simplex

Sparse Additive Modelling

Some Algorithms for Mixed Models

Sensitivity Analysis for Missing Data

Sample size calculation

A Framework for Comparing the Performance of MCMC Samplers

Sample Selection Models

Sample Size Calculation for Various t-Tests and Wilcoxon-Test

Sample Size Calculations for Complex Surveys

Sample Size Calculations for Case-Control Studies

Sample size calculations for normal means

Calculating sample size requirements when estimating the difference between two binomial proportions

Survey Sampling

Survey Sampling Procedures

Sampling Data Within Different Study Designs for Cluster Randomized Trials

Sampling Estimates

Optimal Stratification of Sampling Frames for Multipurpose Sampling Surveys

Sampling Variance Estimation

Sampling Surface Simulation for Areal Sampling Methods

SAM: Significance Analysis of Microarrays

Identifies cell population in flow cytometry data.

Stochastic Augmentation of Matched Data Using Restriction Methods

Sensitivity Analysis of a Meta-analysis with Unpublished but Registered Analytical Investigations

Statistical Analysis of Network Data with R

Robust Covariance Matrix Estimators

Downloads and Tidies the San Francisco Public Utilities Commission Beach Water Quality Monitoring Program Data

Tools for Sanger Sequencing Data in R

C/C++ source code to trigger Address and Undefined Behaviour Sanitizers

Sankey Diagrams

Stratified Analysis with Nonparametric Covariable Adjustment

Spatial Analysis of Network Associations

Spectral Analysis for Physical Applications

A package for variant peptides detection and visualization in shotgun proteomics.

Statistical Analysis of Point Processes

Significance Analysis of Prognostic Signatures

Simulation and Prediction with Seasonal ARIMA Models

XML Output Functions for Easy Creation of Moodle Questions

SAS Database Reader (experimental)

Import ASCII files directly into R using only a SAS input script

Static 'SAS' Code Analysis

'SAS' Markdown

Data sets from "SAS System for Mixed Models"

Significant AnalysiS of PEptide CounTs.

Read and Write 'SAS' 'XPORT' Files

Various Functions for Handling and Manipulating Remote Sensing Data

'SaTScan' (TM) Results Mapper

Spanning Trees Used for Network Inference

saureuscdf

Probe sequence data for microarrays of type saureus

Bayesian Emulation, Calibration and Validation of Computer Models

Fast load variables

Parse and analyze Illumina SAV files

Small-Sample Adjustments for Wald tests Using Sandwich Estimators

Sequential BART for Imputation of Missing Covariates

Smooth Backfitting

Semiparametric Bayesian Gaussian copula estimation and imputation

R Client for Seven Bridges Genomics API

Computing the Singular BIC for Multiple Models

sbioPN: Simulation of deterministic and stochastic spatial biochemical reaction networks using Petri Nets

SBML-R Interface and Analysis Tools

Semidefinite Programming for Fitting Block Models of Equal Block Sizes

Detecting structural breaks using rectangle covering (non-parametric method).

Scalable Bayesian Rule Lists Model

Simplified Bayesian Sensitivity Analysis

USGS ScienceBase Tools

Single-Cell Consensus Clustering

Simple Component Analysis

Compute scagnostics - scatterplot diagnostics

Likert Type Questionnaire Item Analysis

Approximately Unbiased P-values via Multiscale Bootstrap

Scale Functions for Visualization

Processes Calcium Imaging Data

Scaled sparse linear regression

Shape Constrained Additive Models

Single-Case Data Analyses for Single and Multiple AB Designs

Single-channel array normalization (SCAN) and Universal exPression Codes (UPC)

Space-Time Anomaly Detection using Scan Statistics

Statistical Catch-at-Age Plotting Environment

MCMC Diagnostic Plots

Shape-Constrained Additive Regression: a Maximum Likelihood Approach

Optimization Toolkit for Pharmacokinetic-Pharmacodynamic Models

Summary based Conditional Association Test

Single-cell analysis toolkit for gene expression data in R

D3 JavaScript Scatterplot from R

Scatter Pie Plot

3D Scatter Plot

Simultaneous Confidence Bands for the Mean of Functional Data

Size-Constrained Clustering

Single Cell Differential Expression

Estimating Hierarchical Linear Models for Single-Case Designs

Construct Reduced Trees with Predefined Nodal Structures

Stellar CharactEristics Pisa Estimation gRid

Additional grids for SCEPtER

Supervised Component Generalized Linear Regression

Automated Schema on Read

Analyse Citation Data from Google Scholar

Functions and datasets for math used in school

Tools for Analyzing Factorial Experiments

Schumaker Shape-Preserving Spline

A package on the Schwartz two-factor commodity model

Standardized Climate Indices Such as SPI, SRI or SPEI

An R Interface to SciDB

A Tool Set for Analyzing Political Behavior Data

Visualize Reproducibility and Replicability in a Comparison of Scientific Studies

Sparse Column-wise Inverse Operator

Scientific Graphing Functions for Factorial Designs

In Silico Interactome

SciViews GUI API - Main package

Measure Growth Patterns and Align Sampling Spots in Photographs

Single-Case Meta-Analysis

Statistical Comparison of Multiple Algorithms in Multiple Problems

A Package to Score Behavioral Questionnaires

Score Persons Using the Generalized Graded Unfolding Model

Quickly Score Models in Data Science and Machine Learning

SCORER 2.0: an algorithm for distinguishing parallel dimeric and trimeric coiled-coil sequences

Proper scoring rules

Scoring Rules for Parametric and Simulated Distribution Forecasts

The ScottKnott Clustering Algorithm

The Scott-Knott Effect Size Difference (ESD) Test

Implements the Scout Method for Covariance-Regularized Regression

Supply Chain Perform

Phase Variants Within Genes Using Allele Counts

An R Package for Spatial Smoothing

Calculates Scrabble score for strings

Methods for Single-Cell RNA-Seq Data Analysis

Tools for Scraping Data from HTML and XML Documents

Screen and clean variable selection procedures

Analysis of High-Dimensional Categorical Data such as SNP Data

Transcript-Based Unit Tests that are Easy to Create and Maintain

Simulating the Evolution of Biological Sequences

Performs Bayesian Variable Selection on the Covariates in a Semi-Competing Risks Model

Single-Case Randomization Tests

Clean Biological Occurrence Records

scrypt key derivation functions for R

Splitting Conic Solver

SiRNA correction for seed mediated off-target effect

Diving Calculations and Decompression Models

A simple toolbar GUI for brushing RGL plots

Single-Case Visual Analysis

Sparse Convex Clustering

Shrinkage Discriminant Analysis and CAT Score Variable Selection

Sampling: Design and Analysis

Signal Detection via Adaptive Test

Calculate the third-order accurate Unbiased P-values via Speedy double bootstrap method

Statistical Disclosure Control Methods for Anonymization of Microdata and Risk Estimation

Graphical User Interface for Package sdcMicro

Methods for Statistical Disclosure Control in Tabular Data

Statistical Disclosure Control Substitution Matrix Calculator

Serial Dependence Diagrams

Stepwise Diagonal Discriminant Analysis

Shortcuts, Detours and Dead Ends (SDDE) Path Types in Genome Similarity Networks

Semidiscrete Decomposition

Simulation and Inference for Stochastic Differential Equations

Synthesizing List of Differentially Expressed Features

Subgroup Discovery with Evolutionary Fuzzy Systems in R

Integrated methodology for the identification of homogeneous subtypes in data

Species Distribution Modelling

Species Distribution Modelling Playground

Species Distribution Modelling Predictor Datasets

Species Distribution Modelling Tools: Tools for processing data associated with species distribution modelling exercises

Create Virtual Species for Species Distribution Modelling

Soft-Discretization-Based Bayesian Network Inference

Scale-Dependent Hyperpriors in Structured Additive Distributional Regression

Measures of Risk for the Compound Poisson Risk Process with Diffusion

Subgroup Discovery Algorithms for R

Spatially Balanced Sample Draws for Spatial Objects

Scenario Discovery Tools to Support Robust Decision Making

Sparse Distance Weighted Discrimination

Standard errors of estimated genetic parametes

Seawater Carbonate Chemistry

Standard Error Adjusted Adaptive Lasso

Tools for Custom Searches / Subsets / Slices of Named R Objects

Google Search Console R Client

Spatial Search Trees

Seasonal analysis and graphics, especially for climatology

Score Equity Assessment- summary index computation

Seasonal analysis of health data

R Interface to X-13-ARIMA-SEATS

Graphical User Interface for Seasonal Adjustment

U.S. Geological Survey seawaveQ model

SEchart

Statistical Estimation of Cluster Parameters (SECP)

Spatially Explicit Capture-Recapture

Sampling Design for Spatially Explicit Capture-Recapture

Share Sensitive Information in R Packages

Spatially Explicit Capture-Recapture for Linear Habitats

Sequential Co-Sparse Factor Regression

Access Data from the SeeClickFix Web API

Simulation of Evolutionary and Epidemiological Dynamics

Statistics for Environmental Sciences, Engineering, and Geography

Simulation of Ecological and Environmental Models

reading and writing SEER*STAT data files

SEER and Atomic Bomb Survivor Data Analysis Tools

A Quick Way to Map U.S. Rates and Data of U. S. States, Counties, Census Tracts, or Seer Registries using 2000 and 2010 U. S. Census Boundaries

Supplemental U. S. 2010 Census Tract Boundaries for 23 Eastern States without Registries for 'SeerMapper'

Supplemental U. S. 2010 Census Tract Boundaries for 15 States with Seer Registries for 'SeerMapper'

Supplemental U.S. 2010 Census Tract Boundaries for 14 Western States without Seer Registries for 'SeerMapper'

Supplemental U. S. 2000 Census Tract Boundaries for 23 Eastern States without Seer Registries

Supplemental U. S. 2000 Census Tract Boundary for 15 States with Seer Registries for 'SeerMapper'

Supplemental U.S. 2000 Census Tract Boundaries for 14 Western States without Seer Registries for 'SeerMapper'

Sound Analysis and Synthesis

A set of tools for measuring spatial segregation

Detecting Correlated Genomic Regions

Determine Event Boundaries in Event Segmentation Experiments

Regression Models with Break-Points / Change-Points Estimation

A Fast Segmentation Algorithm

Methods for identifying small RNA loci from high-throughput sequencing data

Spatial Exposure-Hazard Model for Exposure and Impact Assessment on Exposed Individuals

Predict Information Cascade by Self-Exciting Point Process

Fast Rolling Functions for Seismology using Rcpp

An Information About Deputies and Votings in Polish Diet from Seventh to Eighth Term of Office

KoNLP static dictionaries and Sejong project resources.

Semiparametric elicitation

Determines Species Probabilities Based on Functional Traits

Analysis of Field and Laboratory Foraging

Correcting Biased Estimates Under Selection

A Tool for Calculation and Optimization of the Expected Gain from Multi-Stage Selection

Tools for Post-Selection Inference

Estimation of Weight Functions in Meta Analysis

Translate CSS Selectors to XPath Expressions

Select Point Pattern Models Based on Minimum Contrast, AIC and Goodness of Fit

Selective Editing via Mixture Models

R Client Implementing the W3C WebDriver Specification

Functions for analyzing SELEX-seq data

Select Features Reliably with Cohen's Effect Sizes

Regularization for Variable Selection in Model-Based Clustering and Discriminant Analysis

Structural Equation Models

Structural equation modeling diagnostics

Information Accretion-based Function Predictor Evaluation

Structural Equation Multidimensional Scaling

Goodness-of-fit indexes for structural equation models

Generator of Semi-Artificial Data

Hierarchical Models for Parametric and Semi-Parametric Analyses of Semi-Competing Risks Data

Identifiability of Linear Structural Equation Models

Multi-States Semi-Markov Models

Semiparametic Regression

Semiparametric Copula Regression Models

Semi-Parametric Sample Selection Modelling with Continuous or Discrete Response

Kernel PCA projection, and semi-supervised variant.

Model Comparisons for SEM

Path Diagrams and Visual Analysis of Various SEM Packages' Output

Structural Equation Modeling Using Partial Least Squares

Useful Tools for Structural Equation Modeling

Recursive Partitioning for Structural Equation Models

'Semantic Versioning V2.0.0' Parser

send email using R

Tool for sending interactive plots with tool-tip content.

Sensitivity Analysis for Comparative Methods

Global Sensitivity Analysis of Model Outputs

Sensitivity Analysis for 2x2xk Tables in Observational Studies

Sensitivity Analysis for Case-Control Studies

Sensitivity Analysis for Full Matching in Observational Studies

Sensitivity Analysis for Observational Studies with Multiple Outcomes

Sensitivity Analysis in Observational Studies

Sensitivity analysis using weighted M-statistics

Principal Stratification Sensitivity Analysis Functions

Analysis of Sensory and Consumer Data in a Mixed Model Framework

Sensory data analysis with R

Test and Optimise Sampling Designs Based on Plume Simulations

Simultaneous Model-Based Clustering and Imputation via a Progressive Expectation-Maximization Algorithm

Thurstonian Models for Sensory Discrimination

Datasets from Sen & Srivastava

Sensitivity Analysis for Stratified Observational Studies

Sensus Analytics

Dictionary-Based Sentiment Analysis

Calculate Text Polarity Sentiment

Provides varied techniques for big data sentiment analysis in R

SEPA

Maximum Likelihood Estimation and Likelihood Ratio Test Functions for Separable Variance-Covariance Structures

Separation Plots

Standard Evaluation Interfaces for Common 'dplyr' Tasks

a novel tool for functional gene-set (or termed as pathway) analysis of next-generation sequencing data

Simple method to detect compositional changes in genomic sequences

Sequential Allocation for Prospective Experiments

Big Data Management of Whole-genome Sequence Variant Calls

Estimation of per-position bias in high-throughput sequencing data

CN Profiling using Sequencing and CBS

Copy number analysis of high-throughput sequencing cancer data

Annotation for the copy number analysis of deep sequencing cancer data with seqCNA

Simulation and Group Sequential Monitoring of Randomized Two-Stage Treatment Efficacy Trials with Time-to-Event Endpoints

A Tool to Associate FASTA Sequences and Features

Simple GUI for Graph Based Visualization of Cluster of DNA Sequence Reads

Gene Set Enrichment Analysis (GSEA) of RNA-Seq Data: integrating differential expression and splicing

Hidden Markov Models for Life Sequences and Other Multivariate, Multichannel Categorical Time Series

Sequential Invariant Causal Prediction

Biological Sequences Retrieval and Analysis

Detection of Kataegis

Sequence logos for DNA sequence alignments

Network Module-Based Model in the Differential Expression Analysis for RNA-Seq

Meta-Analysis of Region-Based Tests of Rare DNA Variants

Efficiently Read Sequence Data (VCF Format, BCF Format and METAL Format) into R

Group Sequential Design Class for Clinical Trials

Visualising oligonucleotide patterns and motif occurrences across a set of sorted sequences

Generates a permutation matrix based upon a sequence.

An interactive tool for visualizing NGS signals and sequence motif densities along genomic features using average plots and heatmaps

Simulation and visualization of restriction enzyme cutting pattern from DNA sequences.

Sequential Triangular Test

Analysis of nucleotide, sequence and quality content on fastq files.

Sequence Analysis

Generic and Biological Sequences

Exact Sequential Analysis for Poisson and Binomial Data

Copy Number Estimation from Tumor Genome Sequencing Data

Pedigree Inference from SNPs

Tools for variant data

Tools to Transform and Query Data with 'Apache' 'Drill'

The Serial Interface Package

Infrastructure for Ordering Objects Using Seriation

Estimating Infection Rates from Serological Data

serumStimulation is a data package which is used by examples in package pcaGoPromoter

A Simple HTTP Server to Serve Static Files or Dynamic Documents

Spatially Explicit Structural Equation Modeling

Computation and visualization of socioeconomic indices and categories distributions

Functions for interacting with, saving and restoring R sessions.

R Session Information

Tools for saving, restoring and teleporting R sessions.

Functions for Set-Theoretic Multi-Method Research and Advanced QCA

Advanced Gene Set Enrichment Analysis

Set (Normal) Random Number Generator and Seed

Sets, Generalized Sets, Customizable Sets and Intervals

Mutators that Work with Pipes

Group Testing Procedures for Signal Detection and Goodness-of-Fit

Software Option Settings Manager for R

Automatically Set the Width Option on Terminal Emulators

Seurat : R toolkit for single cell genomics

Tools for Single Cell Genomics

R Client for Seven Bridges Platform API and CWL Tool builder in R

Mayo's Post-data Severity Evaluation

Calculates the historic date of extinction given a series of sighting events

Simple Features for R

Stochastic Frontier Analysis

Advanced Methods for Stochastic Frontier Analysis

Substance Flow Computation

Constrained Triangulation for Simple Features

Sequential Full Factorial-Based Latin Hypercube Design

Straightforward Filtering Index for AP-MS Data Analysis (SFINX)

Similarity-First Search Seriation Algorithm

Utilities from 'Seminar fuer Statistik' ETH Zurich

Functions for Systems Factorial Technology Analysis of Data

Space Filling Based Tools for Data Mining

Spatial Graph Based Clustering Summaries for Spatial Point Patterns

Stochastic Gradient Descent for Scalable Estimation

Stagewise Generalized Estimating Equations

An Object-Oriented Framework for Geostatistical Modeling in S+

Fit a GLM (or cox model) with a combination of lasso and group lasso regularization

Lasso Method for RCON(V,E) Models

Generic Sparse Group Lasso Solver

An R package for power and boundary calculations in pre-licensure vaccine trials using a sequential generalized likelihood ratio test

Stochastic Gradient Markov Chain Monte Carlo

Multiple Hypothesis Testing

Student Growth Percentiles & Percentile Growth Trajectories

Sparse Generalized Principal Component Analysis

Exemplar Data Sets for SGP Analyses

Sparse Group Partial Least Square Methods

Sample Generation by Replacement

Enrichment Analysis of CRISPR/Cas9 Knockout Screen Data

Splice event prediction and quantification from RNA-seq data

Skewed Generalized T Distribution Tree

Simple Colour Manipulation

Geometric Shadow Calculations

Random Partition Distribution Indexed by Pairwise Information

Functions for Plotting Graphical Shapes, Colors

Change-Point Estimation using Shape-Restricted Splines

Read and Write ESRI Shapefiles

Tools for Analyzing Planar Shape and Associated Patterns

Collection and Analysis of Otolith Shape Data

Statistical Shape Analysis

Shape Selection for Landsat Time Series of Forest Dynamics

Statistical Significance of the Sharpe Ratio

Moment-Free Estimation of Sharpe Ratios

A Soil Survey Toolkit

Models and Data Sets for the Study of Species-Area Relationships

Immunoglobulin Somatic Hypermutation Analysis

SHDZ http://genome-www5.stanford.edu/ Annotation Data (SHDZ)

Natural disaster losses for the USA from the SHELDUS database

Tools to Support the Sheffield Elicitation Framework

Web Application Framework for R

Semantic UI Support for Shiny

Ace Editor Bindings for Shiny

Twitter Bootstrap Components for Shiny

Add CSS Loading Animations to 'shiny' Outputs

Create Dashboards with 'Shiny'

Shiny Drag-n-Drop

Displays User Feedback Next to Shiny Inputs

A Server-Side File System Viewer for Shiny

Deploy 'heatmaply' using 'shiny'

Test and Item Analysis via Shiny

'jQuery UI' Interactions and Effects for Shiny

Easily Improve the User Experience of Your Shiny Apps in Seconds

Bootstrap Landing Home Pages for Shiny Applications

Implement Material Design in Shiny Applications

Interactive visualization for Illumina's 450k methylation arrays

Shiny Wrappers for RGL

Creates an Executable Shortcut for Shiny Applications

Interactive Visual and Numerical Diagnostics and Posterior Analysis for Bayesian Models

Provides a GUI for rTANDEM

Functions to Minimize Bonehead Moves While Working with 'shiny'

Themes for Shiny

A Time Input Widget for Shiny

Notifications from 'Shiny'

Custom Inputs Widgets for Shiny

SHrinkage covariance Incorporating Prior knowledge

Shared Haplotype Length Regression

Slope Heuristic for Block-Diagonal Covariance Selection in High Dimensional Gaussian Graphical Models

An R Interface to the Shopify API

FASTQ input and manipulation

Analyze Shot Group Data

Using Fonts More Easily in R Graphs

Convert a SpatialLinesDataFrame Object to an 'igraph'-Class Object

Global, Parameterwise and Joint Shrinkage Factor Estimation

Several Shrinkage Effect-Size Estimators

Shrinkage Covariance Matrix Estimators

The Shuffle Estimator for Explainable Variance

Stable Isotope Analysis in R

Stable Isotope Bayesian Ellipses in R

Systematic Identification of Bimodally Expressed Genes Using RNAseq Data

Analysis of Single-Cell Viral Growth Curves

Find SNV/Indel differences between two bam files with near relationship

Side Channel Attack

Subgroup Identification Based on Differential Effect Search

Substitution and Indel Distances to Infer Evolutionary Relationships

An Interface to IBGE's SIDRA API

Sieve test reporting functions.

Swedish inflation forecast data set

SIFT Predictions for Homo sapiens dbSNP build 132

Print Function Signatures

statistics for integrative genomics analyses in R

Check a gene signature's prognostic performance against random signatures, known signatures, and permuted data/metadata

Statistical Significance of Clustering

SigFuge

Multiple testing using SAM and Efron's empirical Bayes approaches

Wildlife Sightability Modeling

Signal Location Estimation

Sigmoid Functions for Machine Learning

Signal Processing

Predict Presence of Signal Peptides

Real-Time Signal Extraction (Direct Filter Approach)

Significant Variable Selection in Linear Regression

Perform Exact Sign Test and Asymptotic Sign Test in Large Samples

R API Wrapper for SigOpt

Signature Overrepresentation Analysis

Pathway Analysis

Format Significance Summaries for Reports

Gene signature generation for functionally validated signaling pathways

Identify and Visualize Significantly Responsive Branches in a Phylogenetic Tree

SigWin-detector implementation in R

Calculate ANSI S3.5-1997 Speech Intelligibility Index

Integrated Analysis on two human genomic datasets

Simulation of Diffusion Processes

Graphical User Interface for Simulation of Diffusion Processes

Genotype Simulations for Rare or Common Variants Using Haplotypes from 1000 Genomes

GC-SIM-MS data processing and alaysis tool

A Collection of functions for similarity analysis of vegetation data

Similar Binding Profiles

Simultaneous Inference for Diversity Indices

Simulating Longitudinal Data with Causal Inference Applications

Simultaneous Comparisons for Multiple Endpoints

Simulates Correlated Multinomial Responses

Safe Implementation of Monte Carlo Tests

Structure for Organizing Monte Carlo Simulation Designs

Simulation of Ecological (and Other) Dynamic Systems

Simulation Education

Constrained Single Index Model Estimation

SIMEX- and MCSIMEX-Algorithm for measurement error models

simexaft

Simulation framework

Simulate Models Based on the Generalized Linear Model

A comprehensive modeling framework for epidemiological outcomes and a simulation-based approach to haplotypic analysis of population-based data

Simulated Survival and Hazard Analysis for Time-Dependent Exposure

Metrics to estimate a level of similarity between two ChIP-Seq profiles

Interact with Simile Models

A Framework for Data-Driven Stochastic Disease Spread Simulations

Simulation of Fatigue Lifetimes

Discrete-Event Simulation for R

Plotting Methods for 'simmer'

Simulate Somatic Mutations in Cancer Genomes from Mutational Processes

A Stable Isotope Mixing Model

Subnetwork Integration for Multi-Modal Signatures

Simulation of Event Histories for Multi-State Models

Simulation of Correlated Data with Multiple Variable Types

Statistical Inference for MOdular NEtworks (SIMoNe)

A Method for Simulating Data from Perturbed Biological Pathways

Tools for Simulating and Plotting Quantities of Interest Estimated from Cox Proportional Hazards Models

Tools to Simulate Phenotype(s) with Epistatic Interaction

The package contains BioGRID interactions for various organisms in a simple format

Very simple high level analysis of Affymetrix data

Simple Bootstrap Routines

Simply Caching R Objects

Simple Graph Data Types and Basic Algorithms

An Easy to Use Multilayer Perceptron

Simple R Cache

Set Up R Source Code Files for Use on Multiple Machines

Bayesian Inference and Sensitivity Analysis for Causal Effects from 2 x 2 and 2 x 2 x K Tables in the Presence of Unmeasured Confounding

Regression Analysis of Proportional Data Using Simplex Distribution

Integration of Functions Over Simplices

Basic Symbolic Expression Simplification

Simulation of Synthetic Populations for Survey Data Considering Auxiliary Information

Simulation of synthetic populations for surveys based on sample data

Detecting Simpson's Paradox

Simple Imputation

Power Analysis for Generalised Linear Mixed Models by Simulation

Simulations to Predict the Number of RAD and GBS Loci

Similarity Regression

Individual-Based, Spatially-Explicit Simulation and Analysis of Multi-State Movements in River Networks, Homogeneous, and Heterogeneous Landscapes

Tools for Simulation Studies in Parallel

'Simulates Univariate and Semi-Competing Risks Data Given Covariates and Piecewise Exponential Baseline Hazards'

SIMulated Structural Equation Modeling

Nonparametric Simulation of RNA-Seq Data

Simulation of Study Data

Simulation summary

Simulate Survival Data

Conduct Simulation Studies with a Minimal Amount of Source Code.

Simulation process of 4 selection methods in predicting chemical potent compounds

An Engine for Running Simulations

Simulator for Collections of Independent Genomic Data Sets

A Constrained L1 Minimization Approach for Estimating Multiple Sparse Gaussian or Nonparanormal Graphical Models

Correspondence and Simultaneous Analysis

A SINful Approach to Selection of Gaussian Graphical Markov Models

An Enhanced Chart for Simple and Truthful Representation of Single Observations over Multiple Classes

A simple web app framework for R, based on sinatra.

R package for the statistical assessment of cell state hierarchies from single-cell RNA-seq data

Create 'roxygen2' Skeleton with Information from Function Script

Estimate sparse dynamic graphs using the Smooth Incremental Graphical Lasso Estimation (SINGLE) algorithm

Sum of Independent Non-Identical Binomial Random Variables

Spatial Individual-Plant Modelling

Functions for Calculating Daily Solar Radiation and Evapotranspiration

Single-Index Response Surface Models

Supplementary Item Response Theory Models

Sure Independence Screening

Sequential Input Selection Algorithm

Sparse Interval Sliced Inverse Regression

SISPA: Method for Sample Integrated Set Profile Analysis

SISUS: Stable Isotope Sourcing using Sampling

Some Invalid Some Valid Instrumental Variables Estimator

Super Imposition by Translation and Rotation Growth Curve Analysis

Parallel Pseudo Random Number Generator (PPRNG) 'sitmo' Header Files

Format a number to a string with SI prefix

Single Tree Simulator

Sitree Extensions

Sensitivity Indices with Dependent Inputs

Six Sigma Tools for Quality Control and Improvement

Estimating the Sizes of Populations at Risk of HIV Infection from Multiple Data Sources Using a Bayesian Hierarchical Model

Estimate Size at Sexual Maturity

Sample Size and Power Calculation in Micorarray Studies

SiZer: Significant Zero Crossings

The Omegahat interface for R and Java

JDBC Driver Interface

Labelled Data Utility Functions

Data and Variable Transformation Functions

Data Visualization for Statistics in Social Science

Collection of Convenient Functions for Common Statistical Computations

SNP-Set (Sequence) Kernel Association Test

Efficient meta analysis for the SKAT test

Sparse (Multicategory) Kernel Discriminant Analysis

Genetic Simulation Engine

An R Package Skeleton Generator

Densities and Sampling for the Skellam Distribution

The Skew Hyperbolic Student t-Distribution

Visualize Intensities Produced by Illumina's Human Methylation 450k BeadChip

The Skewed Student-t Distribution

Information Tools for analyze Skew-Elliptical distributions and related models

The Skillings-Mack Test Statistic for Block Designs with Missing Observations

Selective k-Means

Spherical k-Means Clustering

Design of Experiments Suite: Generate and Evaluate Optimal Designs

Canopy Openness Analyzer Package

Search and Download Satellite Imagery using the SkyWatch API

Two-Group Straight Line ANCOVA

Send Messages, Images, R Objects and Files to 'Slack' Channels/Users

Sparse Lightweight Arrays and Matrices

Slope and level change

Estimation and Use of the Quantile-Based Skew Logistic Distribution

Software for Analyzing Limiting Dilution Assays

4253H, Twice Smoothing

Data Sets from Ramsey and Schafer's "Statistical Sleuth (2nd Ed)"

Data Sets from Ramsey and Schafer's "Statistical Sleuth (3rd Ed)"

Tools for Fitting Sparse Latent Factor Model

Synthetic Lethal Genetic Interaction

Maximin-Distance (Sliced) Latin Hypercube Designs

Selective Locally Linear Inference of Cellular Expression Relationships

Create Interactive Carousels with the JavaScript 'Slick' Library

Singular Linear Models for Longitudinal Data

SlimPLS multivariate feature selection

Sparse Linear Method to Predict Ratings and Top-N Recommendations

Sorted L1 Penalized Estimation (SLOPE)

Discrete Prolate Spheroidal (Slepian) Sequence Regression Smoothers

Functions for analysis of real-time quantitative PCR data at SIRS-Lab GmbH

Time Series Decomposition using Loess and Harmonic Regression

Smoothing methods for nonparametric regression and density estimation

Stochastic Multi-Criteria Acceptability Analysis

Sparse Multi-category Angle-Based Large-Margin Classifiers

Multidimensional Scaling

Statistical Methods for the Analysis of Case-Control Point Data

Fits a Fay Herriot Model

Statistical Modeling of Animal Movements

A Segmental Maximum A Posteriori Approach to Array-CGH Copy Number Profiling

Acquisition and Processing of NASA Soil Moisture Active-Passive (SMAP) Data

Sparse Multivariate Analysis via Rank Transformation

Tools for Accessing Various Datasets Developed by the Foundation SmarterPoland.pl

Online Unsupervised Outlier Detection Using Finite Mixtures with Discounting Learning Algorithms

Fast and Robust Surrogate Variable Analysis

(Standardised) Major Axis Estimation and Testing Routines

Optimal Binning for Scoring Modeling

Sequential Monte Carlo (SMC) Algorithm

Multiple Imputation of Covariates by Substantive Model Compatible Fully Conditional Specification

A simple Monte Carlo optimizer using adaptive coordinate sampling

Smoothed minimax concave penalization (SMCP) method for genome-wide association studies.

Data Sets for Statistical Methods in Customer Relationship Management by Kumar and Petersen (2012).

Fit Semiparametric Mixture Cure Models

Utility functions for sequential Monte Carlo

Data to accompany Smithson & Merkle, 2013

Document Similarity

Symbolic Multidimensional Scaling

Smoothing-splines Mixed-effects Models

Statistical Methods for Regional Counts

R functions and data from Chapter 5 of 'Statistical Methods for Financial Engineering'

SMfSB 2e: Stochastic Modelling for Systems Biology, second edition

Smooth Multivariate Interpolation for Gridded and Scattered Data

Companion to Statistical Modelling in R

Provides two taxonomic coefficients from E. S. Smirnov "Taxonomic analysis" (1969) book

Sego Miscellaneous

Significance-based Modules Integrating the Transcriptome and Epigenome

Smith-Wilson Yield Curve Construction

Statistical Machine Learning

Outlier Detection Using Statistical and Machine Learning Methods

Simulation and Estimation of Multi-State Discrete-Time Semi-Markov and Markov Models

Soft Maximin Estimation for Large Scale Array-Tensor Models

Fitting Univariate Censored Regression Model Under the Family of Scale Mixture of Normal Distributions

Smoothing for Stream Network Data

Single and Multi-Objective Optimization Test Functions

Forecasting Using Smoothing Functions

Smoothing of Two-Dimensional Demographic Data, Optionally Taking into Account Period and Cohort Effects

Functions Relating to the Smoothing of Numerical Data

Estimation of Smooth Hazard Models for Interval-Censored Data with Applications to Survival and Illness-Death Models

Smooth Hazard Ratio Curves Taking a Reference Value

Two-dimensional Field Smoothing

Smoothed M-estimators for 1-dimensional location

Survival Regression with Smoothed Error Distribution

Smooth Estimation of GPD Shape Parameter

A Collection of Oversampling Techniques for Class Imbalance Problem Based on SMOTE

Practicals for use with Davison (2003) Statistical Models

Externally Studentized Midrange Distribution

Spatial Microsimulation

Datasets for Agresti and Finlay's "Statistical Methods for the Social Sciences"

Structural Model for variances

The Skew-Normal and Related Distributions, such as the Skew-t

Tools for Social Network Analysis

Social Networks Analysis Data Examples

Signal-to-Noise applied to Gene Expression Experiments

SNAGEE data

Convert Strings into any Case

R and Python Integration

Segmentation, normalisation and processing of aCGH data.

Gadget N-body cosmological simulation code snapshot I/O utilities

Similarity Network Fusion

Standard Normal Homogeneity Test

Snipping methods for robust estimation and clustering

Supervised Normalization of Microarrays

Stabilized Nearest Neighbor Classifier

Social Network-Analysis On Relational Tables

Simple Network of Workstations

Snowball Stemmers

Snowball stemmers based on the C libstemmer UTF-8 library

Bootstrap Methods for Network Inference

Easier cluster computing (based on snow).

Fault Tolerant Simple Network of Workstations

snp.plotter

Supplementary Non-parametric Statistics Methods

SNPs-based whole genome association studies

Visualizations for copy number alterations

SNPs Enrichment Analysis

SNPhood: Investigate, quantify and visualise the epigenomic neighbourhood of SNPs using NGS data

Tools to Create Gene Sets

NPLS Regression with L1 Penalization

Maximally selected statistics for SNP data

Bivariate Gaussian Genotype Clustering and Calling for Illumina Microarrays

Preparing Genotypic Datasets in Order to Run Genomic Analysis

Parallel Computing Toolset for Relatedness and Principal Component Analysis of SNP Data

Parallel Computing Toolset for Genome-Wide Association Studies (GWAS)

SnpMatrix and XSnpMatrix classes and methods

Flexible writing of snpStats objects to flat files

Accessing, subsetting and plotting mouse SNPs.

Stochastic Newton Sampler (SNS)

Scan Statistics in Social Networks

Standard and Nonstandard Statistical Models and Methods for Test Equating

Memory management in R by delayed assignments

Sobol Sequences with Better Two-Dimensional Projections

Specific Correspondence Analysis for the Social Sciences

Social Autocorrelation

Tools for Collecting Social Media Data and Generating Networks for Analysis

A Social Media Search and Analytic Tool

Generates social networks based on distance.

Social Position Indicators Construction Toolbox

SOD for multidimensional scaling.

Functions and Examples for "Software for Data Analysis"

SODA: Main and Interaction Effects Selection for Logistic Regression, Quadratic Discriminant and General Index Models

Optimal Discriminant Clustering(ODC) and Sparse Optimal Discriminant Clustering(SODC)

A Modern and Easy-to-Use Crypto Library

Connector to 'CouchDB'

Interfaz interactiva con fines didacticos

Making Sophisticated and Aesthetical Figures in R

Soft Classification Performance Measures

Soft Clustering Algorithms

Matrix Completion via Iterative Soft-Thresholded SVD

Training Multi-Layer Neural Network for Softmax Regression and Classification

Visualise ChIP-seq, MNase-seq and motif occurrence as aggregate plots Summarised Over Grouped Genomic Intervals

Sparsity Oriented Importance Learning

Soil Spectroscopy Tools and Reference Models

Tools to Analyze Soil Carbon Database Created by Powell Center Working Group

Soil Database Interface

Soil Physical Analysis

A package to consistently represent soil properties along a soil profile

Models of Soil Organic Matter Decomposition

Functions for Soil Texture Plot, Classification and Transformation

Implementation of Parametric Formulas for Soil Water Retention or Conductivity Curve

Radiation and Photovoltaic Systems

An R Interface to SOLAR

Solar Position Algorithm for Solar Radiation Applications

Solid Earth Tide Computation

Parentage analysis

General Purpose R Interface to Solr

General Purpose R Interface to 'Solr'

The Official SolveBio API Client for R

Self-Organizing Map

Topological k-NN Classifier Based on Self-Organising Maps

General-Purpose Optimisation With the Self-Organising Migrating Algorithm

SomatiCA: identifying, characterizing, and quantifying somatic copy number aberrations from cancer genome sequencing

Somatic Cancer Alterations

Somatic Signatures

SOM Bound to Realize Euclidean and Relational Outputs

some Brownian motions simulation functions

Controlling the Generalized Familywise Error Rate

Some Multiple Testing Procedures

Solving Mixed Model Equations in R

Visualisation of hexagonal Kohonen maps

Fundamental Formulas for Sonar

Estimating Abundance of Clones from DNA fragmentation data

Data Sonification - Turning Data into Sound

Single Objective Optimization Benchmark Functions

Non-Parametric Estimation of the Off-Pulse Interval of a Pulsar

Sequential Optimal Designs for Two-Colour cDNA Microarray Experiments

Helps Make Socrata Open Data API Calls

Estimation using Sequential Offsetted Regression

Static Adsorption Experiment Plotting and Analysis

Turns a data frame into an HTML file containing a sortable table.

sortinghat

Finnish Open Government Data Toolkit

Search Contributed R Packages, Sort by Package

An R client for the OGC Sensor Observation Service

Sotkanet Open Data Access and Analysis

United States Presidential State of the Union Addresses

A Sound Interface for R

Soundscape Ecology

Phonetic-Coding for Portuguese

Stochastic Ordering Using Permutations (and Pairwise Comparisons)

Read R code from a GitHub Gist

Fits a Non-Parametric Bayesian Source Attribution Model

Tools for Reading, Tokenizing and Parsing R Code

soybeancdf

Probe sequence data for microarrays of type soybean

Soybean Nested Association Mapping Dataset

Classes and Methods for Spatial Data

Design and Simulation of seamless Phase II-III Clinical Trials

Sliding Window Investment Analysis

Implements The Sequential Predictions Algorithm

SPA3G: R package for the method of Li and Cui (2012)

SPecies Association Analysis

Spatial Convex Clustering

Sparse PArtial Correlation Estimation

A Program to Estimate Animal Abundance and Density using Bayesian Spatially-Explicit Capture-Recapture Models

Extension of SPACE

Sparse conditional graph estimation with joint additive models.

Identification of Mutational Clusters in 3D Protein Space via Simulation.

Classes and Methods for Spatio-Temporal Data

Spatial and Phylogenetic Analysis of Community Diversity

Spatially Weighted Context Data for Multilevel Modelling

R Wrapper to the spaCy NLP Library

Spherical Projections of Astronomical Data

A Set of RStudio Addins

SPADE -- An analysis and visualization tool for Flow Cytometry

Species-Richness Prediction and Diversity Estimation with R

Develop and Run Spatially Explicit Discrete Event Simulation Models

Additional Tools for Developing Spatially Explicit Discrete Event Simulation (SpaDES) Models

Software for Project AERO

SPArse Matrix

64-Bit Extension of the SPArse Matrix R Package 'spam'

Mixed-Effect Models, Particularly Spatial Models

Spatial Panel Data Models

MR Spectroscopy Analysis Tools

Perform rare variants association analysis based on summation of partition approaches

Semiparametric Generalized Linear Models

Perform sparse hierarchical clustering and sparse k-means clustering

Client Side Load Balancing

'Sparklines' in the 'R' Terminal

Read in 'SAS' Data ('.sas7bdat' Files) into 'Apache Spark'

'jQuery' Sparkline 'htmlwidget'

R Interface to Apache Spark

Sparklines and Graphical Tables for TeX and HTML

Generate LaTeX sparklines in R

Load WARC Files into Apache Spark

SPARQL client

Spatial and Spatiotemporal Relative Risk

Sparse Biclustering of Transposable Data

Learning Sparse Bayesian Networks from High-Dimensional Data

Utilities for Learning Sparse Bayesian Networks

Implementation of SparseDC Algorithm

Sparse and Regularized Discriminant Analysis

Scaling Count and Binary Data with Sparse Factor Analysis

Functional Linear Mixed Models for Irregularly or Sparsely Sampled Data

Sparse grid integration in R

Numerical Estimation of Sparse Hessians

Sparse Discriminant Analysis

Sparse Learning Algorithms Using a LASSO-Type Penalty for Coefficient Estimation and Model Prediction

RcppEigen back end for sparse least trimmed squares regression

Sparse Linear Algebra

Multivariate Normal Functions for Sparse Covariance and Precision Matrices

Fit sparse linear regression models via nonconvex optimization

'Rcpp' Interface to 'sparsepp'

Sparse Bayesian Models for Regression, Subgroup Analysis, and Panel Data

Sparse-aware Maximum Likelihood for Structural Equation Models

SparseStep Regression

Sparse Truncated Singular Value Decomposition (from 'SVDLIBC')

Solution Paths of Sparse Linear Support Vector Machine with Lasso or ELastic-Net Regularization

Sparse Time Series Chain Graphical Models

A Package for Sparse VAR/VECM Estimation

I/O Operations with Sparse Matrices

Simulation Parameter Analysis R Toolkit ApplicatioN: Spartan

Study Planning and Adaptation of Sample Size

Spatial count regression

Spatio-Temporal Modeling of Large Data Using a Spectral SPDE Approach

Score Test Based on Saddlepoint Approximation

Graph Edge Computations for Spatial Point Patterns

Functions for Kriging and Point Pattern Analysis

Hierarchical spatial generalized extreme value (GEV) modeling with Bayesian Model Averaging (BMA)

R functions for working with spatial data.

Spatial Accessibility Measures

Spatial Clustering using Fuzzy Geographically Weighted Clustering

Computation of Spatial Covariance Matrices for Data on Rectangles

Spatial Analysis and Modelling

Methods and Data for Spatial Epidemiology

A Shiny Web Application for the Analysis of Spatial and Spatio-Temporal Disease Data

Modelling Spatial Extremes

Application of 2D Convolution Kernel Filters to Matrices or 3D Arrays

Non-Parametric Estimation of Spatial Segregation in a Multivariate Point Process

Performs spatial NBDA in a Bayesian context

Multivariate nonparametric methods based on spatial signs and ranks

Package for analysis of spatial data

Spatial Position Models

Spatial Probit Models

Segregation Measures for Multitype Spatial Point Patterns

Estimation of spatial tail dependence models

Tools for Spatial Data Analysis

Spatial Forecast Verification

Model-Based Clustering of Spatio-Temporal Data

Spatio-Temporal Model Estimation

Regularized Spatial Maximum Covariance Analysis

Regularized Principal Component Analysis for Spatial Data

Spatial Analysis of Field Trials with Splines

Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests

Extension to 'spatstat' for Local Composite Likelihood

Utility Functions for 'spatstat'

Bayesian Spatial Survival Analysis with Parametric Proportional Hazards Models

Convert Spatial Data Using Tidy Tables

Univariate and Multivariate Spatial-Temporal Modeling

Bayesian Modeling and Analysis of Spatially Correlated Survival Data

Statistical Process Control -- Collection of Some Useful Functions

Statistical Process Control for Stochastic Textured Surfaces

Functions for Calibrating Control Charts

A New Reduced-Rank Linear Discriminant Analysis Method

Selective phenotyping for experimental crosses

Spatial Coverage Sampling and Random Sampling from Compact Geographical Strata

Sparse Estimation of a Covariance Matrix

Sparse Principal Component Regression

Semi Parametric Distribution

Datasets for Spatial Analysis

Spatial Dependence: Weighting Schemes, Statistics and Models

Spatial Downscaling Using Bias Correction Approach

Data Manipulation Verbs for the Spatial Classes

Split-Population Duration (Cure) Regression

Spatio-Dynamic Wetland Plant Communities Model

Stochastic Proximity Embedding

Tools for Nuclear Magnetic Resonance (NMR) Spectra Alignment, Peak Based Processing, Quantitative Analysis and Visualizations

Wavelet Based Tools for Feature-Wise Analysis and Quantification of Nuclear Magnetic Resonance (NMR) Spectra

A Data Specification Format and Interface

Alternative spectral clustering, with automatic estimation of k.

Spectroscopy Related Utilities

Statistical package for species richness estimation

Prepare Species Distributions for the Use in Phylogenetic Analyses

Fit Mixtures of Archetype Species

Specificity of personality trait-outcome (or trait-trait) associations

specL - Prepare Peptide Spectrum Matches for Use in Targeted Proteomics

Metabolomics and Spectral Data Analysis and Mining

Condition specific detection from expression data

Forecast Verification Routines for Ensemble Forecasts of Weather and Climate

Common Methods of Spectral Data Analysis

Singular Spectrum Analysis (SSA) Tools for Time Series Analysis

Discovering Genetic Ancestry Using Spectral Graph Theory

Approximate Gaussian Processes Using the Fourier Basis

Diffusion Map and Spectral Map

Spectra Visualization, Organizer and Data Preparation

Estimation of the Relative Importance of Factors Affecting Species Distribution Based on Stability Concept

Fitting Linear and Generalized Linear Models to Large Data Sets

A GUI based importing and filtering tool

Package containing the required libraries (jars) for speedR

speedR's table filter library

Semiparametric Estimating Functions

Semiparametric efficient estimation for a two-sample treatment effect

Calculation of the Standardised Precipitation-Evapotranspiration Index

Correct the Spelling of a Given Word in the English Language

S-system parameter estimation method

Auxiliary Functions to Estimate Centers of Biodiversity

Perform Spatial Error Estimation and Variable Importance in Parallel

Spatial Extent as Polygons with Projection

Spatial Stochastic Frontier Models

Pre-Processing and Analysis of Mid-Infrared Spectral Region

Interface Between GRASS 6+ Geographical Information System and R

Statistical Patterns in Genomic Sequences

Geographically Weighted Regression

Spherical plotting

Numerical Integration over Spheres and Balls in n-Dimensions; Multivariate Polar Coordinates

Spherical K-Function

Spherical Wavelets and SW-based Spatially Adaptive Methods

Estimation of spatial autoregressive models with and without heteroskedastic innovations

Compute SPI index

Signaling Pathway Impact Analysis (SPIA) using combined evidence of pathway over-representation and unusual signaling perturbations

A genetic-based assay for the identification of cell lines

Species Identity and Evolution in R

SpidermiR: An R/Bioconductor package for integrative network analysis with miRNA data

Fits Predator Preferences Model

Compute SPI Index using the Methods Genetic Algorithm and Maximum Likelihood

Part of Affymetrix's Spike-In Experiment Data

Affymetrix Spike-in Langmuir Isotherm Data Analysis Tool

Detecting Election Fraud from Irregularities in Vote-Share Distributions

Prediction and variable selection using spike and slab regression

Bayesian Variable Selection and Model Choice for Generalized Additive Mixed Models

Simulation-efficient Shortest Probability Intervals

Spatial Methods and Indices

Sparse Generative Model and Its EM Algorithm

Methods for Spike-in Arrays

Spatial and Space-Time Point Pattern Analysis

splicegear

Classification of alternative splicing and prediction of coding potential from RNA-seq data.

A bioconductor package for exploration of alignment gap positions from RNA-seq data

Regression Spline Functions and Classes Too

Time-course differential gene expression data analysis using spline regression models followed by gene association network reconstruction

Combined Evaluation and Split Access of Functions

Calculate Task Split Half Reliability Estimates

Stack and Reshape Datasets After Splitting Concatenated Values

Econometric Models for Spatial Panel Data

Visualization of high-throughput assays in microtitre plate or slide format

Sparse Partial Least Squares (SPLS) Regression and Classification

Supplemental S-PLUS Functionality in R

Times and Dates from S-PLUS

Time Series from S-PLUS

Wrapper Functions for 'SPM' (Statistical Parametric Mapping) Version 12 from the 'Wellcome' Trust Centre for 'Neuroimaging'

Continuous-Lag Spatial Markov Chains

Semiparametric Maximum Likelihood Method for Interactions Gene-Environment in Case-Mother Control-Mother Designs

Moran's Eigenvector-Based Spatial Regression Models

Sub-Pathway Mining Software

Plotting (Social) Networks on Maps

Spatial Regression Models for Large Datasets using Nearest Neighbor Gaussian Processes

Interface to Species Occurrence Data Sources

Utilities for Use with 'spocc'

Spatial Oblique Decision Tree

Transform a Movie into a Synthetic Picture

Semiparametric proportional odds rate model

Infrastructure for Sports Analytics

Sequential Parameter Optimization Toolbox

Microarray Spot Segmentation and Gridding for Blocks of Microarray Spots

Combining Different Spatial Datasets in Cancer Risk Estimation

Modeling Spatial Poisson and Related Point Processes

Sparse Arrays and Multivariate Polynomials

Statistical Package for Reliability Data Analysis

Selecting a Predictive Function for a Given Gene Expression Data

Calculate Species Richness and Extrapolation Metrics

Simple Parallel R INTerface

Framework for Screening Prognostic Interactions

An Easy Interface to String Formatting

Sparse and Non-Sparse Partial Robust M Regression and Classification

Sparse modeling toolkit

Wald's Sequential Probability Ratio Test

Optimization of Sample Configurations using Spatial Simulated Annealing

Selecting Spatial Scale of Covariates in Regression Models

Shape-Preserving Uni-Variate and Bi-Variate Spline Interpolation

Site Percolation on Square Lattice (SPSL)

spsmooth: An Extension Package for 'mgcv'.

Spatial Survey Design and Analysis

Sierpinski Pedal Triangle

Spatially Varying and Spatio-Temporal Dynamic Linear Models

Nonparametric Hypothesis Tests of Isotropy and Symmetry

Functions for Spatial Thinning of Species Occurrence Records for Use in Ecological Models

Spatio-Temporal Bayesian Modelling Using R

SemiParametric Transformation Model Methods

Spatial Uncertainty Propagation Analysis

Functions and Datasets for "Introduction to Scientific Programming and Simulation Using R".

Sparse Quadratic Discriminant Analysis

Manipulate R Data Frames Using SQL

Connection wrapper to SQLite databases

Rendering Parameterized SQL and Translation to Dialects

Utilities for Generating SQL Queries from Model Objects

API for access to SQLShare database

Utilities for working with SQL files.

subset quantile normalization

Add-on of the SQUAD Software

Squared Extrapolation Methods for Accelerating EM-Like Monotone Algorithms

Color-Based Plots for Multivariate Visualization

Statistical Quantification of Individual Differences

Selection Response Analysis

A compilation of metadata from NCBI SRA and tools

Simplified RNA-Seq Analysis Pipeline

Statistical Ranking Color Scheme for Multiple Pairwise Comparisons

SRMA Analysis of Array-based Sequencing Data

Nonparametric Smooth ROC Curves for Continuous Data

Shared Reproducibility Package Management

The Stepwise Response Refinement Screener (SRRS)

'dplyr'-Like Syntax for Summary Statistics of Survey Data

Fisheries Stock Assessment Simulation Testing with Stock Synthesis

Simultaneous Signal Analysis

Sample Size Adjusted for Nonadherence or Variability of Input Parameters

Statistics Norway's Miscellaneous Small Tools

Semi-Supervised Classification Methods

Robust Correlation Estimation and Testing Based on Spatial Signs

S-Score Algorithm for Affymetrix Oligonucleotide Microarrays

Strength of Selected Codon Usage

Functions to Analyze Single System Data

Stacked Species Distribution Modelling

Tools Developed for Structured Sufficient Dimension Reduction (sSDR)

Sample Size Estimation

Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size

Spatial Stochastic Frontier Analysis

Fitting of parametric models using summary statistics

Local and remote system commands with output and error capture.

Estimate Microarray Sample Size

Sample Size Calculations for Microarray Experiments

Sample Size Calculation for RNA-Seq Experimental Design

Stable Sparse K-Means

Semi-Supervised Learning

Fit and Analyze Smooth Supersaturated Models

Skew Scale Mixtures of Normal Distributions

Robust estimation and inference in sample selection models

Scale-Shape Mixtures of Skew-Normal Distributions

Spatial Modeling on Stream Networks

General Sample Size and Power Analysis for Microarray and Next-Generation Sequencing Data

State Space Models in R

Smoothing Splines on the Sphere

Estimating Hidden Population Size using Respondent Driven Sampling Data

Sakai Sequential Relation Analysis

Two-dimensional sociometric status determination with rating scales

Sample Size Calculation using Restricted Mean Survival Time

Tools for Importing Files in the Triple-s (Standard Survey Structure) Format

State space models

Sparse SVD

A small RNA-seq visualizer and analysis toolkit

Fitting Semi-Parametric log-Symmetric Regression Models

Shrinkage t Statistic and Correlation-Adjusted t-Score

Data Analysis for Drug Stability

Probability Functions and Generalized Regression Models for Stable Distributions

Stable Distribution Functions

Estimate the Four Parameters of Stable Laws using Different Methods

Stable Specification Search in Structural Equation Models

Stability Selection with Error Control

Stylized concatenation of data.frames or ffdfs

Fish Migration Monitoring

'ODBC' Connection Class for Package stacomiR

Mixture of Two-Stage Logistic Regressions with Fixed Candidate Knots

Spatio-Temporal Analysis and Modelling

Statistical Analysis of Mixed Ploidy Populations

Spatial Temporal Analysis of Moving Polygons

The genomic STate ANnotation package

Statistical Analysis of Non-Detects

Tools for Standardizing Variables for Regression in R

Standardize Text

Standardized Group Lasso

C++ Header Files for Stan

Spike Train Analysis with R

Stability Ranking

Well-Formatted Regression and Summary Statistics Tables

Modelling Space Time AutoRegressive Moving Average (STARMA) Processes

Population Structure Model Inference and Visualisation

Simple tiling array analysis of Affymetrix ChIP-chip data

Secondary Trait Association analysis for Rare variants via SEQuence data

Single to Double Arm Transition Design for Phase II Clinical Trials

Automatically Retrieve Multidimensional Distributed Data Sets

Functions for the STARTS Model

Friendly R Startup Configuration

Utilities for Start-Up Messages

A Set of Tools for Administering SHared Repositories

Datasets for Stat2

Tools Inspired by 'Stata' to Manipulate Tabular Data

Statistical Analysis of Chemistry, Histopathology, and Reproduction Endpoints Including Repeated Measures and Multi-Generation Studies

Extract Statistics from Articles and Recompute p Values

Statistical Complexity and Information Measures for Time Series Analysis

Statistical Analysis for Environmental Data

Read and Write StatDataML Files

U.S. State Cartogram Heatmaps in R; an Alternative to Choropleth Maps for USA States

Classes and methods for multi-omics data integration

Shapefiles for the Contiguous United States of America

Bayesian Ordinal Analysis for State Trace Designs

statfi R tools

StatFingerprints

Statistical Methods for Graphs

Get Hourly Meteorological Data from Global Stations

Miscellaneous Basic Statistical Functions

Functions for Teaching Statistical Modeling

Statistical Matching

Easy Data Manipulation, Data Quality and Statistical Checks

Statistical Methods for Ranking Data

Statistical Modeling

Software Tools for the Statistical Analysis of Network Data

Common R Scripts and Utilities Used by the Statnet Project Software

A Graphical User Interface for Network Modeling with 'Statnet'

Statistical Performance Measures to Evaluate Covariance Matrix Estimates

Graduate Statistics Program Datasets

Quotes on Statistics, Data Visualization and Science

Statistical Rank Aggregation: Inference, Evaluation, and Visualization

R 'API' Binding to Stats.grok.se Server

Simultaneous Tolerance Bounds

Tools for Inference with Set-Theoretic Comparative Methods

Stein's Covariance Estimator

Calculate the Standardized Difference for Numeric, Binary and Category Variables

Regression Standardization

C++ Standard Library Vectors in R

ICA and Tests of Independence via Multivariate Distance Covariance

Testing Steepness of Dominance Hierarchies

Steiner Tree Approach for Graph Analysis

Semi-Parametric Stein-Like Estimator with Instrumental Variables

stellar evolution tracks and isochrones

Spatio-temporal models in R

Differentiation of Human Embryonic Stem Cells under Hypoxia gene expression dataset by Prado-Lopez et al. (2010)

ABC-SMC Inference of STEPCAM

Stepwise normalization functions for cDNA microarrays

Subpopulation Treatment Effect Pattern Plot (STEPP)

Stepwise Forward Variable Selection in Penalized Regression

L2 penalized logistic regression with a stepwise variable selection

Multiscale Change-Point Inference

Step-Wise Signal Extraction via Marginal Likelihood

Stepwise detection of recombination breakpoints

Stepwise Classification of Cancer Samples using High-dimensional Data Sets

Multiple Testing Method to Control Generalized Family-Wise Error Rate and False Discovery Proportion

Stereo Camera Calibration and Reconstruction

Calculation of the Standardized Temperature Index

Fits Stickbreaking, Multiplicative and Additive Models to Data

Persist Attributes Across Data Operations

Separable Gaussian Process Interpolation (Emulation)

Simultaneous Threshold Interaction Modeling Algorithm

Stineman, a consistently well behaved method of interpolation

Microarray Data from Yeoh et al. in MACAT format

Enhanced Seasonal Decomposition of Time Series by Loess

Estimation of the Structural Topic Model

Structural Topic Model Browser

A Tool for Structural Topic Model Visualizations

Spatio-Temporal Median Polish

Rapid and Accurate Genetic Prediction Modeling for Genome-Wide Association or Whole-Genome Sequencing Study Data

Shiny Application for Creating STM Models

Stochastic Mortality Modelling

Plots a QQ-Norm Plot with several Gaussian simulations.

Fit a Spatial Occupancy Model via Gibbs Sampling

Solving stochastic linear programs with a single risk constraint

Stochastic Modeling

Stochastic Profiling using Maximum Likelihood Estimation

Efficient Bayesian Inference for Stochastic Volatility (SV) Models

Real-Time Stock Price & Volume in China Market

Build stock models and analyze stock portfolios.

R Functions for Solving Stoichiometric Equations

Write Storm Bolts in R using the Storm Multi-Language Protocol.

Model Tropical Cyclone Wind Speeds

Simple Key Value Stores

Theme Enrichment Analysis for Stories

Stochastic Simulator for Reliability Modeling of Repairable Systems

Selection of Training Populations by Genetic Algorithm

Sustainable Transport Planning

Stochastic Process Model for Analysis of Longitudinal and Time-to-Event Outcomes

Space-Time Point Pattern simulation, visualisation and analysis

Perform residual analysis on space-time point process models.

STR Decomposition

Ranking of pathogen strains

Stratigraphic Tree Analysis for Palaeontology

An Implementation of the Stratification Index

Summaries and Population Structure Analyses of Genetic Data

Stratified Spherical Approximate Conditional Modeling

Optimal Stratification in Stratified Sampling

Strategic Players

Generic Framework to Analyze Trading Strategies

Univariate Stratification of Survey Populations

Performs Stratified Covariate Balancing for Data with Discrete and Continuous Outcome Variables

Builds Trees by Sampling Variables in Groups

Toolkit for the plotting and analysis of stratigraphic and palaeontological data

Strategic Selection Estimator

Optimal Stratification in Stratified Sampling Optimization Algorithm

Stratified Weibull Regression Model

Infrastructure for Data Stream Mining

Enabling stream processing of large files

What the package does (short line)

Calculate Single Station Metabolism from Diurnal Oxygen Curves

Interface for MOA Stream Clustering Algorithms

Access to Twitter Streaming API via R

Functions to help the process of learning structural equation modelling

Streamlined Estimation of Survival for Static, Dynamic and Stochastic Treatment and Monitoring Regimes

Fetch and plot financial stress index and component data.

Computation and Estimation of Reliability of Stress-Strength Models

Convenient Base R String Handling

STRINGdb (Search Tool for the Retrieval of Interacting proteins database)

Approximate String Matching and String Distance Functions

Dynamic String Formatting

PPI and Gaussian Network Construction from Transcriptomic Analysis Results Integrating a Multilevel Factor

Character String Processing Facilities

Simple, Consistent Wrappers for Common String Operations

Lighten your R Model Outputs

Structured Trellis Displays Without Strips for Lattice Graphics

Extract Text from RTF File

R Codes and Datasets for Generalized Linear Mixed Models: Modern Concepts, Methods and Applications by Walter W. Stroup

An Easy Interface to Time Formatting

Testing, Monitoring, and Dating Structural Changes

False Discovery Control Procedure Integrating the Prior Structure Information

Structural geology tools

Tree-Structured Clustering

Multiple Testing for Hypotheses with Hierarchical or Group Structure

STRUctural Modeling of Latent Variables for General Pedigree

Process Control and Internal Validation of Forensic STR Kits

Structural Time Series Models

Class and Methods for Structural Time Series Models

Stubbing Framework for R

Student's t Vector Autoregression (StVAR)

Functions for a Variety of Stylometric Analyses

Bivariate Empirical Subcopula

Maximum-Likelihood Cultural Consensus Analysis with Sub-Cultures

Detect Subgroup with an Enhanced Treatment Effect

Methods for exploring treatment effect heterogeneity in subgroup analysis of clinical trials

Subgroup Discovery and Bump Hunting

Patient Subgroup Identification for Clinical Drug Development

Gene selection using Lasso for Microarray data with user-defined genes fixed in model.

Automatic Lesion Incidence Estimation and Detection using Multi-Modality Longitudinal Magnetic Resonance Images

Within Outlying Mean Indexes: Refining the OMI Analysis

Identify Signal Subpathways Competitively Regulated by LncRNAs Based on ceRNA Theory

Unconstrained Optimization using the Subplex Algorithm

Manage Sub-Processes in R

Computes Copula using Ranks and Subsampling

Computing Subscores in Classical Test Theory and Item Response Theory

Systematic Screening of Study Data for Subgroup Effects

Selecting Variable Subsets

An Ensemble Method for Combining Subset-Specific Algorithm Fits

Subsampling of high-throughput sequencing count data

Interface to OpenSubspace

Interface to 'subspaceMOA'

Subgroup Specific Optimal Dose Assignment

Cluster analysis to find molecular subtypes and their assessment

Visual Exploration of Protein Alignments Resulting from Multiple Substitution Matrices

Sudoku Puzzle Generator and Solver

Tools for Making and Spoiling Sudoku Games

Sudoku Puzzle (9*9 12*12 16*16) Generator and Solver

Subsampling method

Plots to help optimising diabetes therapy

sugarcanecdf

Probe sequence data for microarrays of type sugarcane

Supporting Graphs for Analysing Time Series

Easy Calculation and Visualisation of Confidence Intervals

SummarizedExperiment container

Dataframe Summaries, Frequency Tables and Descriptive Stats with Various Output Formats

'Htmlwidget' for 'Kerry Rodden' 'd3.js' Sequence Sunburst

Compute Sun Position, Sunlight Phases, Moon Position and Lunar Phase

Quantification of the effect of geographic versus environmental isolation on genetic differentiation

Sunter's sampling design

The Self-Updating Process Clustering Algorithms

Supervised Clustering of Predictor Variables such as Genes

Generating Robust Biclusters from a Bicluster Set (Ensemble Biclustering)

R Code for Testing Markov Chain Nonconvergence

Exact Test and Visualization of Multi-Set Intersections

Superfast Likelihood Inference for Stationary Gaussian Time Series

A Graphical Tool for Exploring Complex Datasets Using Heatmaps

Super Learner Prediction

Implements the supervised multidimensional scaling (superMDS) proposal of Witten and Tibshirani (2011)

Supervised principal components

Supervised Classification Learning and Prediction using Patient Rule Induction Method (PRIM)

Supplementary Distributions

Basic Functions for Supporting an Implementation of Best-Worst Scaling

Basic Functions for Supporting an Implementation of Case 2 Best-Worst Scaling

Basic Functions for Supporting an Implementation of Choice Experiments

Calculates Likelihood Support Intervals for Common Data Types

A Supra-Hexagonal Map for Analysing Tabular Omics Data

Surrogate Residuals for Ordinal and General Regression Models

Fitting Hansen Models to Investigate Convergent Evolution

Evaluation of Surrogate Endpoints in Clinical Trials

Evaluation of Failure Time Surrogate Endpoints in Individual Patient Data Meta-Analyses

LaTeX descriptive statistic reporting for survey data

Inference for Model-Free Between-Group Parameters for Censored Survival Data

Estimate accuracy measures for risk prediction markers from survival data

Estimators of prediction accuracy for time-to-event data.

Two-Sample Tests Based on Differences of Kaplan-Meier Curves

Fits a proportional hazards model to time to event data by a Bayesian approach

C-statistics for risk prediction models with censored survival data

Performance Assessment and Comparison for Survival Analysis

Discrete Time Survival and Longitudinal Data Analysis

Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic Phenomena

Relative survival, AER and SMR based on French death rates

Analysis of Complex Survey Samples

Tools for the Bootstrap with Survey Data

Tools to Work with Survey Data

Generate a Survey that can be Completed by Survey Respondents

Helps Manage Outliers in Sample Surveys

Survey Planning Tools

The Gini concentration test for survival data

Survival Analysis in Health Economic Evaluation

IDI and NRI for comparing competing risk prediction models with censored survival data

Inference and Prediction in an Illness-Death Model

Survival Analysis

Estimation of the bivariate distribution function

Continuous Biomarker Assessment by Exhaustive Survival Analysis

Penalised Maximum Likelihood for Survival Analysis Models

Time-dependent ROC curve estimation from censored survival data

Survival Support Vector Analysis

Survival Prediction by Joint Analysis of Microarray Gene Expression Data

survJamda.data

Drawing Survival Curves using 'ggplot2'

Miscellaneous Functions for Survival Data

Presmoothed Estimation in Survival Analysis

Rank Based Survival Modelling

Survival analysis for recurrent event data

Weibull Regression for a Right-Censored Endpoint with Interval-Censored Covariate

Comparing Restricted Mean Survival Time

Simulation of Simple and Complex Survival Data

Power Calculations for SNP Studies with Censored Outcomes

Compute Targeted Minimum Loss-Based Estimates in Right-Censored Survival Settings

Utility Functions for Survival Analysis

Tools for visualizing genomics data

Surrogate Variable Analysis

Measures of the Sturdiness of Regression Coefficients

Surrogate variable analysis using partial least squares in a gene expression study.

2d and 3d Space-Varying Coefficient Models

Interfaces to Various State-of-Art SVD and Eigensolvers

SciViews GUI API - Dialog boxes

SciViews GUI API - Dialog boxes using Tcl/Tk

Singular Value Decomposition Visualization

SVD visualization tools

Svensson's Method

An 'SVG' Graphics Device

Map experimental data on custom-made SVG file

R 'Htmlwidget' to Add Pan and Zoom to Almost any R Graphic

SciViews GUI API - Functions to manage GUIs

3D Animated Interactive Visualizations Using SVG

SciViews GUI API - R HTTP server

SciViews GUI API - IDE and code editor functions

SciViews GUI API - Functions to interface with Komodo Edit/IDE

SVM2CRM: support vector machine for cis-regulatory elements detections

Linear/Nonlinear SVM Classification Solver Based on ADMM and IADMM Algorithms

SciViews GUI API - Miscellaneous functions

SVMMaj algorithm

The SVM Path Algorithm

Tools for Semantic Vector Spaces

SciViews GUI API - R Socket Server

SciViews GUI API - Sweave functions

SciViews GUI API - Tools (wrapper for packages tools and codetools)

SciViews GUI API - Unit testing

SciViews GUI API - Widgets & Windows

Nomograms for Right-Censored Outcomes from Survey Designs

A package for complex surveys including plausible values

Visualization, analysis and adjustment of high-dimensional data in respect to sample annotations.

A Null Model Adapted to Abundance Class Data in Ecology

Ensemble Learning Algorithms Based on Support Vector Machines

Transform and Filter SWATH Data for Statistical Packages

SWATH extended library generation and satistical data analysis

A multi-OS implementation of the TAMU SWAT model.

Stepped Wedge Cluster Randomized Trial (SW CRT) Design

Utilities for Sweave Together with TeX 'listings' Package

Tidy Tools for Forecasting

Handling of Swedish Identity Numbers

An R interface to the web API of Statistics Sweden

Miscellaneous Functions for Southwest Fisheries Science Center

SwimR: A Suite of Analytical Tools for Quantification of C. elegans Swimming Behavior

Learn R, in R

A Toolbox for Writing 'swirl' Courses

Air Quality Data of Switzerland for one year in 30 min Resolution

Utilities to train and validate classifiers based on pair switching using the K-Top-Scoring-Pair (KTSP) algorithm.

Switching nonparametric regression models for a single curve and functional data

Installing, Managing, and Switching Between Distinct Sets of Installed Packages

Publish Package Manifests to GitHub Gists

R Interface for US EPA's SWMM

Retrieving, Organizing, and Analyzing Estuary Monitoring Data

SWord: Use R in Microsoft Word (Installer)

Efficient Constrained Based Modelling

Cost Constrained FLux Balance Analysis: MetabOlic Modeling with ENzyme kineTics (MOMENT)

Cycle-Free Flux Balance Analysis

Dynamic FBA : Dynamic Flux Balance Analysis

Using Gene Expression Data to Improve Flux Balance Analysis Predictions

SBML Integration in Package 'Sybil'

Syllable Counting and Readability Measurements

A Small Collection of Syllable Counting Functions

Analysis of Symbolic Data

Symbol plots

Partitioned Symmetric Matrices

Symbolic central and noncentral moments of the multivariate normal distribution

Symmetric Tempered Stable Distributions

Label-free data analysis pipeline for optimal identification and quantitation

Framework for the Analysis of Genomic Prediction Data using R

Data for the Synbreed Package

Boost Mutex Functionality in R

Methods for computing spatial, temporal, and spatiotemporal statistics

Synchrosqueezed Wavelet Transform

Subsample Temporal Data to Synchronal Events and Compute the MCI

A Synchronized Tausworthe RNG for R and Python

SYNCSA - Analysis of functional and phylogenetic patterns in metacommunities.

Interface to The Synergizer service for translating between sets of biological identifiers.

Calculate and Visualize Synergy Scores for Drug Combinations

Inference and Analysis of Sympatry Networks

Hits Selection for Synthetic Lethal RNAi Screen Data

Synthetic Likelihood methods for intractable likelihoods.

Synthetic RNA-Seq Network Generation and Mutual Information Estimates

Synthetic Control Group Method for Comparative Case Studies

Synthetic Microdata and Spatial MicroSimulation Modeling for ACS Data

Generating Synthetic Versions of Sensitive Microdata for Statistical Disclosure Control

Portable System Utilities

Loading Fonts into R

System Identification in R

Estimating Systems of Simultaneous Equations

A Toolbox for Systemic Risk

systemPipeR: NGS workflow and report generation environment

Extracts Sentiment and Sentiment-Derived Plot Arcs from Text