Posterior Predictive Checks of Coalescent Models

Welfare's Synthetic Indicator

Analyzing survival data

Performance Attribution for Equity Portfolios

PAA (Protein Array Analyzer)

Summarize Daily Physical Activity from 'activPAL' Accelerometer Data

Pabon Lasso Graphs and Comparing Situations of a Unit in Two Different Times

Partition-Assisted Clustering and Multiple Alignments of Networks

Clustering Online Datasets

PAC-Bayesian Estimation and Prediction in Sparse Additive Models.

Convert values to/from raw vectors

Build Website of Package Documentation

Track R Package Downloads from RStudio's CRAN Mirror

Circle Packing

Toy example of Pack Classic

Mapping dependencies among R packages

A few Useful Functions for Statisticians

A Dependency Management System for Projects and their R Package Dependencies

Toy Example of S4 Package

Package Management Tool

Procrustes Application to Cophylogenetic Analysis

iPACOSE, PACOSE and other methods for covariance selection

Testing for Partial Copulas and the Simplifying Assumption in Vine Copulas

Predictive Analysis of Clinical Trials

Variational Bayes (VB) Approximation of Gibbs Posteriors with Hinge Losses

PadÃ© Approximant Coefficients

Pathway Analysis with Down-weighting of Overlapping Genes (PADOG)

Quickly Get Datetime Data Ready for Analysis

paeg1acdf

Probe sequence data for microarrays of type paeg1a

Attributable Fraction Function for Censored Survival Data

Generative Mechanism Estimation in Temporal Complex Networks

Put Page Numbers on Graphics

An API Client for Wikimedia Traffic Data

The package can identify the dysregulated KEGG pathways based on global influence from the internal effect of pathways and crosstalk between pathways.

Pathway Analysis Methods for Genomewide Association Data

Plotting Paintmaps

Multiple comparison test visualization

Confidence intervals for the ratio of locations and for the ratio of scales of two paired samples

Paired Data Analysis

A tool for comparing heatmaps

D3 Scatterplot Matrices

classical pair trading based on cointegration in finance

Visualization using Eulerian tours and Hamiltonian decompositions

Rasch Model Parameters by Pairwise Algorithm

Confidence Intervals for Two Sample Comparisons

Significance Tests for Palaeoenvironmental Reconstructions

Download and Process Data from the Paleobiology Database

Analysis of Charcoal Records from the Global Charcoal Database

Paleoecological Analysis

Geometric Morphometric Tools for Paleobiology

Paleontological and Phylogenetic Analyses of Evolution

Analyze Paleontological Time-Series

Use Pokemon Inspired Colour Palettes

Insolation for Palaeoclimate Studies

Fitting Point Process Models via the Palm Likelihood

Poisson Approximation for LOcal Motif Assessment

Colour Palettes for Data

Color Palettes, Colormaps, and Tools to Evaluate Them

Principal Axes Methods for Contingency Tables with Partition Structures on Rows and Columns

Preprocessing and Modeling Kinase Activity Profiles in PamChip Data

Power Analysis for Random Effects in Mixed Models

Implementation of the Panel Data Approach Method for Program Evaluation

Pam: prediction analysis for microarrays

Multiple Imputation for Multivariate Panel or Clustered Data

Benchmarking and Rescaling R2 using Noise Percentile Analysis

Preferential Attachment Based Common Neighbor Distribution Derived Functional Associations

PANDA Algorithm

An R Pandoc Writer

Pandoc Filters for R

Aggregate Longitudinal Survey Data

Estimation of Linear AR(1) Panel Data Models with Cross-Sectional Heteroskedasticity and/or Correlation

Random Effects and/or Sample Selection Models for Panel Count Data

Linear models for panel data

Client for the 'Pangaea' Database

PANIC Tests of Nonstationarity

A Semi-Parametric Test for Specifying Functional Form

Protein annotation data package builder

Presence-Absence Calls from Negative Strand Matching Probesets

Posterior association networks and functional modules inferred from rich phenotypes of gene perturbations

Generate PanViz visualisations from your pangenome

View Medical Research Images using the Papaya JavaScript Library

A Toolbox for Writing Pretty Papers and Reports

Distance Recordings from a Paper Plane Folding/Flying Experiment

Predict metabolic pathway activity based on metabolomics data

Random Forest Classification with Parallel Computing

Automate parallelization of function calls by means of dynamic code analysis

Unified Interface to Parallelization Back-Ends

Methods for combining independent subset Markov chain Monte Carlo (MCMC) posterior samples to estimate a posterior density given the full data set

A Parallel-Voting Algorithm for many Classifiers

Paralellised Versions of Constraint Based Causal Discovery Algorithms

A Parallel-Voting Version of the Support-Vector-Machine Algorithm

Parallel Tree

A Shiny GUI for some Parameter Estimation Examples

Helpers for Parameters in Black-Box Optimization, Tuning and Machine Learning

Parametric Linkage and Other Pedigree Analysis in R

Simplify Parameters

Horn's Test of Principal Components/Factors

RangedSummarizedExperiment for RNA-Seq of primary cultures of parathyroid tumors by Haglund et al., J Clin Endocrinol Metab 2012.

Distributed Model-Based Boosting

Regularized estimation of partial correlation matrices

Parallel implementation of the "segment" function of package "DNAcopy"

Conduct the Parent-Offspring Test Using Monomorphic SNP Markers

Computing, Fitting and Validating the PPS Distribution

Parametric Frailty Models

Parallelized functions for palaeoecological and palaeogeographical analysis

support for parallelized estimation of GLMs/GEEs

Portfolio Allocation and Risk Management Applications

Parallel Mutual Information estimation for Gene Network reconstruction.

Parametric And Resistant Outlier DYtection

Model-Based Clustering with Regularization Methods for High-Dimensional Data

Partial Orders in Socio-Economics

Recognize and Parse Dates in Various Formats, Including All ISO 8601 Formats

Parse Thermo MSF Files and Estimate Protein Abundances

Detailed R source code parser

Parallel spatial statistics

Partitioning Using Deletion, Substitution, and Addition Moves

PartheenMetaData http://swegene.onk.lu.se Annotation Data (PartheenMetaData)

Partial Autoregression

Partial Cointegration

Partially Overlapping Samples t-Tests

Partial Odds Ratio

Partition Maps

Compute a distance metric between two partitions of a set

Additive Partitions of Integers

Tools for the 'Parallel' Package

Periodic Autoregressive Time Series Models

A Laboratory for Recursive Partytioning

A Toolkit for Recursive Partytioning

Parviol

Polygenic Analysis System (PAS)

Summarize Daily Physical Activity from 'SenseWear' Accelerometer Data

Preprocessing of Aligned Sequences from HTS Analyses

Data package with per-exon and per-gene read counts of RNA-seq samples of Pasilla knock-down by Brooks et al., Genome Research 2011.

Subset of BAM files from "Pasilla" experiment

Data package with transcript expression obtained with kallisto from pasilla knock-down RNA-Seq data from Brooks et al.

Prediction and Stability Selection of Tuning Parameters

Create Random Passwords

Noodlyfied Pasting of Strings

Package for Analysis of Space-Time Ecological Series

Phylogenetic Assembly with Soft Taxonomic Inferences

PROBABILITY and STATISTICS WITH R

Probability and Statistics with R, Second Edition

Package to Patch .dvi or .synctex Files

Scatterplots of image patches

Communication Between Editor and Viewer for Literate Programs

Prediction of pathway-related protein-protein interaction networks

A Tool for Identification of Differentially Expressed Pathways using Multi-Statistic Comparison

Classification using biological pathways as prior knowledge

Basic functions for drawing path diagrams

Quantify deregulation of pathways in cancer

Compute Deviation and Correspondence Between Spatial Paths

Pathmox Approach of Segmentation Trees in Partial Least Squares Path Modeling

An R package for pathway analysis using topological information

Experimental data for the PathNet package

Path Manipulation Utilities

Render molecular pathways

Backwards Variable Selection for Paths using M Plus

Methods to Find Pathways with Significantly Different Variability

a tool set for pathway based data integration and visualization

Visualizing Temporal Microbiome Data

Class-Focused Pattern Metric Comparisons using Simulation

Quantification of Color Pattern Variation

Versatile Pie Chart using Patterns, Colors, and Images

Bayesian Experimental Design for Systems Biology.

Perceptual Analysis, Visualization and Organization of Spectral Color Data in R

Physical Activity with Accelerometers

Implementation of the PAWL algorithm

PaxtoolsR: Access Pathways from Multiple Databases through BioPAX and Pathway Commons

Adding Progress Bar to '*apply' Functions

Manipulating and exploring protein and proteomics data

P2BAT

Product of Bivariate Copulas (PBC)

Permutation-Based Confidence for Molecular Classification

Protracted Birth-Death Model of Diversification

Programming with Big Data -- Base Wrappers for Distributed Matrices

Programming with Big Data -- Demonstrations and Examples Using 'pbdR' Packages

'pbdR' Distributed Matrix Methods

Programming with Big Data -- Interface to MPI

Programming with Big Data -- Interface to Parallel Unidata NetCDF4 Format Data Files

Programming with Big Data --- MPI Profiling Tools

Programming with Big Data -- Remote Procedure Call

Programming with Big Data -- Scalable Linear Algebra Packages

Programming with Big Data -- Interface to ZeroMQ

Partially Balanced Incomplete Block Designs

A Set of Datasets Used in My Classes or in the Book 'Modele Liniowe i Mieszane w R, Wraz z Przykladami w Analizie Danych'

Vectorized Bivariate Normal CDF

Parametric Bootstrap and Kenward Roger Based Methods for Mixed Model Comparison

Tracking the Progress of Mc*pply with Progress Bar

Permutation Based Non-Parametric Analysis of CRISPR Screen Data

Probability of Backtest Overfitting

Plot Brackets

Periodic B Splines

ADMB for R Using Scripts or GUI

Solver for Delay Differential Equations

Mapping Fisheries Data and Spatial Analysis Tools

GUI Tools Made Easy: Interact with Models and Explore Data

Three Dimensional PCA Plots

Segmenting Multiple Time Series by Contemporaneous Linear Transformation

Create 2D Principal Component Plots with Bootstrapping

Fast Principal Component Analysis for Outlier Detection

Tools for Principal Component Analysis-Based Data Structure Comparisons

Interactive Visualization of RNA-seq Data Using a Principal Components Approach

pcaGoPromoter is used to analyze DNA micro array data

L1-Norm PCA Methods

Methods for Graphical Models and Causal Inference

A collection of PCA methods

Multivariate Analysis of Mixed Data

Phenotype Consensus ANalysis (PCAN)

Parallel Analysis for Ordinal and Numeric Data using Polychoric and Pearson Correlations with S3 Classes

Robust PCA by Projection Pursuit

Dynamic Principal Components for Periodically Correlated Functional Time Series

Semiparametric regression analysis of panel count data using monotone splines

Permutations and Combinations Enumeration

Principal Component of Explained Variance

Computation of Ancestry Scores with Mixed Families and Unrelated Individuals

Preconditioned Conjugate Gradient Algorithm for solving Ax=b

Principal Component Gene Set Enrichment

Piecewise Constant Hazards Models for Censored and Truncated Data

Implementation of POSIXct work-alike for 365 and 360 day calendars.

IRT Models for Polytomous and Continuous Item Responses

Partial Correlation Coefficient with Information Theory

Patient-Centered Network Meta-Analysis

Panel Cointegration Tests

Principal Coordinates and Hotelling's T-Square method

Principal Covariates Regression

Phenotypes and cellular organizational units

Principal Coordinates of Phylogenetic Structure

Implementing the Coalescent Approach to PCR Simulation Developed by Weiss and Von Haeseler (NAR, 1997)

Simulation of the Forensic DNA Process

Calculate the probability of correct selection (PCS)

Panel-Corrected Standard Error Estimation in R

Parallel Constraint Satisfaction Networks in R

Principal curve analysis

Platform Design Info for NimbleGen 2006-07-18_hg18_refseq_promoter

Platform Design Info for NimbleGen 2006-07-18_mm8_refseq_promoter

Platform Design Info for NimbleGen 2006-10-31_rn34_refseq_promoter

Platform Design Info for The Manufacturer's Name AG

Platform Design Info for The Manufacturer's Name ATH1-121501

Platform Design Info for The Manufacturer's Name Barley1

Platform Design Info for The Manufacturer's Name Bovine

Platform Design Info for The Manufacturer's Name Bsubtilis

Platform Design Info for The Manufacturer's Name Canine

Platform Design Info for The Manufacturer's Name Canine_2

Platform Design Info for The Manufacturer's Name Celegans

Platform Design Info for NimbleGen charm_hg18_example

Platform Design Info for The Manufacturer's Name Chicken

Platform Design Info for Affymetrix ChiGene-1_0-st

Platform Design Info for Affymetrix ChiGene-1_1-st

Platform Design Info for Affymetrix CHOGene-2_0-st

Platform Design Info for Affymetrix CHOGene-2_1-st

Platform Design Info for The Manufacturer's Name Citrus

Platform Design Info for The Manufacturer's Name Cotton

Platform Design Info for The Manufacturer's Name DrosGenome1

Platform Design Info for The Manufacturer's Name Drosophila_2

Platform Design Info for The Manufacturer's Name E_coli_2

Platform Design Info for The Manufacturer's Name Ecoli

Platform Design Info for The Manufacturer's Name Ecoli_ASv2

Platform Design Info for Affymetrix EquGene-1_0-st

Platform Design Info for Affymetrix EquGene-1_1-st

Platform Design Info for Affymetrix FinGene-1_0-st

Platform Design Info for Affymetrix FinGene-1_1-st

Platform Design Info for Affymetrix GuiGene-1_0-st

Platform Design Info for Affymetrix GuiGene-1_1-st

Platform Design Info for The Manufacturer's Name HC_G110

Platform Design Info for The Manufacturer's Name HG-Focus

Platform Design Info for The Manufacturer's Name HG-U133_Plus_2

Platform Design Info for The Manufacturer's Name HG-U133A

Platform Design Info for The Manufacturer's Name HG-U133A_2

Platform Design Info for The Manufacturer's Name HG-U133A_tag

Platform Design Info for The Manufacturer's Name HG-U133B

Platform Design Info for The Manufacturer's Name HG-U219

Platform Design Info for The Manufacturer's Name HG_U95A

Platform Design Info for The Manufacturer's Name HG_U95Av2

Platform Design Info for The Manufacturer's Name HG_U95B

Platform Design Info for The Manufacturer's Name HG_U95C

Platform Design Info for The Manufacturer's Name HG_U95D

Platform Design Info for The Manufacturer's Name HG_U95E

Platform Design Info for NimbleGen hg18_60mer_expr

Platform Design Info for The Manufacturer's Name HT_HG-U133_Plus_PM

Platform Design Info for The Manufacturer's Name HT_HG-U133A

Platform Design Info for The Manufacturer's Name HT_MG-430A

Platform Design Info for The Manufacturer's Name Hu6800

Platform Design Info for The Manufacturer's Name Maize

Platform Design Info for Affymetrix MedGene-1_0-st

Platform Design Info for Affymetrix MedGene-1_1-st

Platform Design Info for The Manufacturer's Name Medicago

Platform Design Info for The Manufacturer's Name MG_U74A

Platform Design Info for The Manufacturer's Name MG_U74Av2

Platform Design Info for The Manufacturer's Name MG_U74B

Platform Design Info for The Manufacturer's Name MG_U74Bv2

Platform Design Info for The Manufacturer's Name MG_U74C

Platform Design Info for The Manufacturer's Name MG_U74Cv2

Platform Design Info for The Manufacturer's Name miRNA-1_0

Platform Design Info for Affymetrix miRNA-2_0

Platform Design Info for Affymetrix miRNA-3_0

Platform Design Info for Affymetrix miRNA-3_1

Platform Design Info for Affymetrix miRNA-4_0

Platform Design Info for The Manufacturer's Name MOE430A

Platform Design Info for The Manufacturer's Name MOE430B

Platform Design Info for The Manufacturer's Name Mouse430_2

Platform Design Info for The Manufacturer's Name Mouse430A_2

Platform Design Info for The Manufacturer's Name Mu11KsubA

Platform Design Info for The Manufacturer's Name Mu11KsubB

Platform Design Info for The Manufacturer's Name NuGO_Hs1a520180

Platform Design Info for The Manufacturer's Name NuGO_Mm1a520177

Platform Design Info for Affymetrix OviGene-1_0-st

Platform Design Info for Affymetrix OviGene-1_1-st

Platform Design Info for The Manufacturer's Name Pae_G1a

Platform Design Info for The Manufacturer's Name Plasmodium_Anopheles

Platform Design Info for The Manufacturer's Name Poplar

Platform Design Info for The Manufacturer's Name Porcine

Platform Design Info for Affymetrix PorGene-1_0-st

Platform Design Info for Affymetrix PorGene-1_1-st

Platform Design Info for The Manufacturer's Name RAE230A

Platform Design Info for The Manufacturer's Name RAE230B

Platform Design Info for The Manufacturer's Name Rat230_2

Platform Design Info for The Manufacturer's Name RG_U34A

Platform Design Info for The Manufacturer's Name RG_U34B

Platform Design Info for The Manufacturer's Name RG_U34C

Platform Design Info for The Manufacturer's Name Rhesus

Platform Design Info for The Manufacturer's Name Rice

Platform Design Info for The Manufacturer's Name RN_U34

Platform Design Info for The Manufacturer's Name S_aureus

Platform Design Info for The Manufacturer's Name Soybean

Platform Design Info for The Manufacturer's Name Sugar_Cane

Platform Design Info for The Manufacturer's Name Tomato

Platform Design Info for The Manufacturer's Name U133_X3P

Platform Design Info for The Manufacturer's Name Vitis_Vinifera

Platform Design Info for The Manufacturer's Name wheat

Platform Design Info for The Manufacturer's Name X_laevis_2

Platform Design Info for The Manufacturer's Name X_tropicalis

Platform Design Info for The Manufacturer's Name Xenopus_laevis

Platform Design Info for The Manufacturer's Name Yeast_2

Platform Design Info for The Manufacturer's Name YG_S98

Platform Design Info for The Manufacturer's Name Zebrafish

Permutation Distribution Clustering

Cluster analysis via nonparametric density estimation

Fetch Economic and Financial Time Series Data from Public Sources

Search Tools for PDF Files

Programmatic Conversion of PDF Tables

Text Extraction and Rendering of PDF Documents

Platform Design Information Package Builder

Partitioned Distance Function

Photogrammetric Distances Measurer

Classification of Microarray Samples using Penalized Discriminant Methods

Proximal/distal modeling framework for Pavlovian conditioning phenomena

Panel Dynamic OLS Estimation of Cointegrating Vectors

Partial Dependence Plots

Pattern Discovery in PDB Structures of Metalloproteins

PDQ Functions via Gram Charlier, Edgeworth, and Cornish Fisher Approximations

Threshold Model and Unit Root Tests in Panel Data

Positive definite sparse covariance estimators

Positive-Definite Wavelet-Based Multivariate Spectral Analysis

Periodogram Peaks in Correlated Time Series

Estimation of the peak-to-trough ratio of a seasonal variation component

Peak Picking Methods Inspired by Biological Data

Monitor the Total and Peak RAM Used by an Expression or Function

Peaks

Package for Periodic Autoregression Analysis

Maximum Likelihood Inference for the Pearson VII Distribution with Shape Parameter 3/2

Pearson Distribution System

Independent component analysis using score functions from the Pearson system

Prediction Error Curves for Risk Prediction Models in Survival Analysis

Probe-level Expression Change Averaging

Functions to facilitate power and sensitivity analyses for genetic studies of natural populations

FHCRC Nelson Lab pedbarrayv10 Annotation Data (pedbarrayv10)

FHCRC Nelson Lab pedbarrayv9 Annotation Data (pedbarrayv9)

An implementation for association analysis with CNV data.

Gene-Level Statistics for Pedigree Data

Pedigree functions

Pedigree-based mixed-effects models

Pedometric Tools and Techniques

Luck-Corrected Peer Performance Analysis in R

Population and Evolutionary Genetics Analysis System

Population Proportion Estimation using Group Testing

Geophysical Inverse Theory and Optimization

A Penalized EM algorithm incorporating missing-data mechanism

Portable Emissions (and Other Mobile) Measurement System Utilities

L1 (Lasso and Fused Lasso) and L2 (Ridge) Penalized Estimation in GLMs and in the Cox Model

Penalized Classification using Fisher's Linear Discriminant

Feature Selection SVM using penalty functions

Flexible Copula Density Estimation with Penalized Hierarchical B-Splines

Regularization in Cox Frailty Models

Density Estimation with a Penalized Mixture Approach

Flexible Pair-Copula Estimation in D-Vines using Bivariate Penalized Splines

Group l1 penalized logistic normal multinomial (LNM) regression model.

Estimating Regularized Multi-state Models Using L1 Penalties

Simulation of high-dimensional data and parallelized repeated penalized regression

Peptide microarray data package

Parallelised Estimation of Prediction Error

Peptide Library Analysis Methods

Insilico peptide mutation, digestion and homologous comparison.

PepSAVI-MS Data Analysis

Statistical analysis of peptide microarrays

Evaluation of Diversity in Nucleotide Libraries

Calculate Indices and Theoretical Physicochemical Properties of Protein Sequences

Parsing pepXML files and filter based on peptide FDR.

Moderated Regression Package

Periodic Time Series Analysis

Using Percolation and Conductance to Find Information Flow Certainty in a Direct Network

Implementing Double Bootstrap Linear Regression Confidence Intervals Using the 'perc-cal' Method

Person Fit

PerfMeas: Performance Measures for ranking and classification tasks

Econometric tools for performance and risk analysis

An Infra-Structure for Performance Estimation of Predictive Models

Toolbox for Polyploid Genetic Data

Periodic Table of the Elements

Exact or Asymptotic permutation tests

Permutational Algorithm to Simulate Survival Data

Permutations and Mallows Distributions

Using GPUs in Statistical Genomics

Permutational Group Sequential Test for Time-to-Event Data

Permutation Based Gene Expression Pathway Analysis

Permutation test to compare variability within and distance between two groups

A Permutation Based Test for Biomarker Discovery in Microbiome Data

Permutations of a Finite Set

Functions for Generating Restricted Permutations of Data

Regression Functions and Datasets

Resampling-based prediction error estimation for regression models

English to Persian dictionary

Automated Persomics Array Image Extraction

Pictographic Representation of Treatment Effects

Permutation of Species During Turnover Events

Tools for evaluating collinearity

Analysis of single serving and composite pesticide residue measurements

Simulation and Reconstruction of PET Images

Penalized Exponential Tilt Model

Reproducible Retrieval of Pew Research Center Datasets

Phylogenetics for the Environmental Sciences

Prevented fraction.

Estimates False Discovery Proportion Under Arbitrary Covariance Dependence

A set of protein ID mappings for PFAM

Paired Functional Data Analysis

An package for identification of novel peptides by customized database derived from RNA-Seq

Poisson-Gamma Additive Models.

Penalized Generalized Estimating Equations in High-Dimension

Penalized Generalized Estimating Equations for Bivariate Mixed Outcomes

Parallel Group ICA Algorithm

Data Analysis in Ecology

panel generalized linear model

Generalized Least Square in comparative Phylogenetics

Nested Resolvable Designs and their Associated Uniform Designs

Estimating Multiple Gaussian Graphical Models (GGM) in Penalized Gaussian Mixture Models (GMM)

Parsimonious Gaussian Mixture Models

The p-Generalized Normal Distribution

Build Dependency Graphs using Projection

Discover Probable Duplicates in Plant Genetic Resources Collections

Precision of Geometric Sampling

Parametric Gene Set Enrichment Analysis

Bayesian Single-Arm Phase II Designs

Phase II Clinical Trial Design Using Bayesian Methods

Phase II Clinical Trial Design for Multinomial Endpoints

Phalen Algorithms and Functions

Phylogenetic Analysis in R

Gene Set Pareto Heterogeneity Analysis of Time-Course Gene Expression Data

Analysis of Large-Scale Pharmacogenomic Data

Pharmacometric Power calculations for mixed study designs

Repeated Measurement Design for Phase I Clinical Trial

Phase Plane Analysis of One and Two Dimensional Autonomous ODE Systems

Inference for Phase-type Distributions

Modelling anthropogenic deforestation

Pretty Heatmaps

Nonparametric Stability Analysis

Auxiliary Functions for Phenological Data Analysis

Phenotypic Integration Index

Auxiliary functions for phenological data processing, modelling and result handling

Auxiliary functions for phenological data analysis

High-Throughput Generation of Genetic Markers and Maps from Molecular Phenotypes for Crosses Between Inbred Strains

Phenotypic distance measures

Tools to Manage a Parametric Function that Describes Phenology

Tools to test association between gene expression and phenotype in a way that is efficient, structured, fast and scalable. We also provide tools to do GSEA (Gene set enrichment analysis) and copy number variation.

Statistical analysis of phenotypic data

Evaluation of the Proportional Hazards Assumption with a Standardized Score Process

Post-Hoc Interaction Analysis

Similarity and Distance Quantification Between Probability Functions

Nonparametric goodness-of-fit methods based on phi-divergences

Proportional Hazards Mixed-effects Model (PHMM)

Persistent Homology in R

Convert Letters to Numbers and Back as on a Telephone Keypad

Phonetic Spelling Algorithms

Tools for Phoneticians and Phonologists

Tools for Phonetic and Acoustic Analyses

Photobiological Calculations

Read Spectral and Logged Data from Foreign Files

Spectral Data of Light Emission by Lamps

Spectral Data for Light-Emitting-Diodes

Plant Photobiology Related Functions and Data

Waveband Definitions for UV, VIS, and IR Radiation

Simple Phrase Extraction

R Interface to Geochemical Modeling Software

Panel Data Analysis with Heterogeneous Time Trends

Proportional Habitat Use Assessment

PharmacoVigilance Signal Detection

Run Phoenix NLME and Perform Post-Processing

Marks periods of sleep in Actigraph accelerometer data

Analysis of Outbreaks with Sequence Data

Phylogenetic Clustering (Phyloclustering)

An extension of some of the classes in phylobase. Tree objects now support subnodes on branches

An Extension (for Package 'SigTree') of Some of the Classes in Package 'phylobase'

Rapid Calculation of Phylogenetic Information Content

Spatial Interpolation of Genetic Data

Base Package for Phylogenetic Structures and Comparative Data

Interactive Phylogenetic Trees Using the 'Phylocanvas' JavaScript Library

Integrating Phylogenetics and Climatic Niche Modeling

Phylogenetic Comparative Methods for High-Dimensional Traits

Automatic Shift Detection using a Phylogenetic EM

Functions for Phylogenetically Based Statistical Analyses

Modelling Competitive Exclusion and Limited Dispersal in a Statistical Phylogeographic Framework

Phylogenetic Linear Regression

Fast and Exact Algorithms for Computing Phylogenetic Biodiversity Measures

Estimating Statistical Errors of Phylogenetic Metrics

Perform Phylogenetic Path Analysis

Handling and analysis of high-throughput microbiome census data

Exploring the Phylogenetic Signal in Continuous Traits

Flexible Simulations of Biological Sequence Evolution

Phylogenies with Annotations

Phylogenetic tools for Eco-phylogenetics

Calculating Topological Properties of Phylogenies

Matches Tip and Trait Data

Implements the Phylogenetic Regression of Grafen (1989)

Marks Periods of 'Bedrest' in Actigraph Accelerometer Data

Process Physical Activity Accelerometer Data

A Fast, Flexible Tool for Sorting Phylogenetic Trees

Phylogenetic Tools for Comparative Biology (and Other Things)

Estimating the Proportion of True Null Hypotheses for FDR

Platform for integrative analysis of omics data

R tools for integrating phylogenies and ecology

Pathwise Calibrated Sparse Shooting Algorithm

Adaptive Gene Picking for Microarray Expression Data Analysis

Probabilistic inference of ChIP-seq

Process Improvement using Data

Piecewise Structural Equation Modeling

Base Level Annotation databases for pig

Self contained gene set analysis for gene- and pathway-environment interaction analysis

Polygenic Inverse Gamma Shifts

Global Univariate Minimization

Fit Probabilistic Index Models

Estimates the parameters of a trading-tree model for the computation of the probability of informed trading

Fast and Stable Estimation of the Probability of Informed Trading (PIN)

Sequence ('FASTA'), Annotation ('GFF') and Variants ('VCF') for 17 Samples of 'P. Infestans" and 1 'P. Mirabilis'

Probabilistic inference for Nucleosome Positioning with MNase-based or Sonicated Short-read Data

Check if a Remote Computer is Up

A Wrapper for the Pinnacle API

Pairwise INTegration of functional genomics data

Dual-Agent Dose Escalation for Phase I Trials using the PIPE Design

Convert Nested Functions to Pipes

Permutation p-Value Estimation for Gene Set Tests

Machine Learning Pipelines for R

Multi-Paradigm Pipeline Implementation

Predicted Interval Plots

Generated Effect Modifier

Tools for Harnessing 'MLBAM' 'Gameday' Data and Visualizing 'pitchfx'

A Fast, Easy-to-Use Tool for Manipulating Tables in Databases and a Wrapper of MADlib

Create Pivot Tables in R

Tables so Beautifully Fine-Tuned You Will Believe It's Magic

Bitmap Images (``Pixel Maps'')

Basic Non-Compartmental Pharmacokinetics

Data Analysis Tool for Pharmacokinetics

Private Configuration for 'R' Packages

Copy Local R Packages to Another Environment

Package Dependency Tools

Create Simple Packages Which Do not Upset R Package Checks

Package development utilities

Model diagnostics for population pharmacokinetic models

pkgutils -- Utilities for creating R packages.

Public Key Infrastucture for R Based on the X.509 Standard

Software for Pharmacokinetic model

Least-Squares Estimator under k-Monotony Constraint for Discrete Functions

Perform Pharmacokinetic Non-Compartmental Analysis

Pharmacokinetic/pharmacodynamic models

Pharmacokinetics in R

A reporting pipeline for checking population pharmacokinetic model assumption

Probabilistic Knowledge Structures

unified computational interfaces for pop PK

Population Size Estimation

Parallel Line Assays

A Pairwise Likelihood Augmented Cox Estimator for Left-Truncated Data

Tools for Accessing the Google Maps API

Tools for project planning

Multilayer Optics

Functions for Calculating Dodge Romig, MIL STD 105E and MIL STD 414 Acceptance Sampling Plan

Generation of Regular Factorial Designs

Modelling and Analysis of Leaf Gas Exchange Data

Partially Linear Additive Quantile Regression

Tumor Mutation Detection in Plasma

Visualization of Plasmid Profile Results

plasmodiumanophelescdf

Probe sequence data for microarrays of type plasmodiumanopheles

Statistical tools and data structures for plate-based flow cytometry

Read, Tidy, and Display Data from Microtiter Plates

Tools and Plots for Multi-Well Plates

Dynamic Updating Methods for Player Ratings Estimation

Representing and exploring data through sound

A GUI for interactive plots using GTK+

Interface to the 'Pleiades' 'Archeological' Database

Pleiotropy Test for Multiple Traits on a Genetic Marker

R framework for exploration and analysis of respirometry data

Probabilistic Latent Feature Analysis

A GUI to View, Design and Export Various Graphs of Data

Detect differential expression in microarray and proteomics datasets with the Power Law Global Error Model (PLGEM)

Particle Learning of Gaussian Processes

Implements the Affymetrix PLIER algorithm

IRT Separate Calibration Linking Methods

Multiplicity control using Pooled LIS statistic

Linear Models for Panel Data

Additive partially linear models for differential gene expression analysis

Bayesian Analysis of Finite Mixtures of Plackett-Luce Models for Partial Rankings/Orderings

Partially Linear Mixed Effects Model

Polytomous logit-normit (graded logistic) model estimation

The 'plog' C++ Logging Library

Multivariate Ordered Probit Model via Pairwise Likelihood

Plot scatter points for two groups of values

Plotting Multi-Dimensional Data

Plotting Multi-Dimensional Data - Using 'rgl'

Various Functions to Facilitate Visualization of Data and Analysis

Plot Spatial or Spatio-Temporal Data Over Google Maps

Visualization of Spatial and Spatio-Temporal Objects in Google Earth

'ggplot2' Version of "I'm Feeling Lucky!"

Create Interactive Web Graphics via 'plotly.js'

MCMC Diagnostic Plots

Plot Marginal Effects from Linear Models

Plot a Model's Response and Residuals

Plot Principal Component Histograms Around a Scatter Plot

Useful Networking Tools for Project Management

Creates an envelope that surrounds a set of points plotted in a two dimensional space.

Various Plotting Functions

Generate Useful ROC Curve Charts for Print and Interactive Use

Making Visual Exploratory Data Analysis Easier

Graphing Nonlinear Relations Among Latent Variables from Structural Equation Mixture Models

Spider Plots, ROC Curves, Pie Charts and More for Use in Other Plots

Local Pooled Error Test for Differential Expression with Paired High-throughput Data

Log Linear by Linear Association models and Rasch family models by pseudolikelihood estimation

Statistical inference in partial linear regression models

Piecewise Linear Regression Splines (PLRS) for the association between DNA copy number and gene expression

Partial Least Squares and Principal Component Regression

The Partial Least Squares (PLS) Biplot

Partial Least Squares (PLS) Data Analysis Methods

Degrees of Freedom and Statistical Inference for Partial Least Squares Regression

PLS Analyses for Genomics

Tools for Partial Least Squares Path Modeling (PLS-PM)

Formula Based PLS Path Modeling

Sensitivity Indexes from Polynomial Chaos Expansions and PLS

Partial Least Squares Regression for Beta Regression Models

Partial Least Squares Regression for Cox Models and Related Techniques

Partial Least Squares Regression for Generalized Linear Models

Variable Selection in Partial Least Squares

Simulate Probabilistic Long-Term Effects in Models with Temporal Dependence

Plug-in Kernel Density Estimation

An API Generator for R

Mutable and dynamic data models

Penalized Linear Unbiased Selection

A Google+ Interface for R

Probe level Locally moderated Weighted t-tests.

Tools for Splitting, Applying and Combining Data

Penalized Multivariate Analysis

Phylogenetic Monte Carlo

pmcgd

Parallel Model-Based Clustering using Expectation-Gathering-Maximization Algorithm for Finite Mixture Gaussian Model

Calculate Pairwise Multiple Comparisons of Mean Rank Sums

Book Companion for Processing and Modelling Financial Data with R

Poor Man's GUI

Minimal Working Examples for Particle Metropolis-Hastings

Processes Mining in Medicine

Penalized Multinomial Logistic Regression

Parallel Mixed Model

Generate PMML for Various Models

Transforms Input Data from a PMML Perspective

Probability Models for Ranking Data

Parametric Network Enrichment Analysis

Prime Numbers and Integer Factorization

Read and write PNG images

Probit-Normal Marginalized Transition Random Effects Models

Probabilistic neural networks

A package containing metadata for POCRC arrays

Dose Finding in Drug Combination Phase I Trials Using PO-CRM

Position-Dependent Kernel Association Test

Principal Orthogonal ComplEment Thresholding (POET) Method

Bayesian Variable Selection for a Poisson-Logistic Model

The Poisson Binomial Distribution

Classification and clustering of sequencing data based on a Poisson model

Poisson lognormal and bivariate Poisson lognormal distribution

Point Density for Geospatial Data

Analyzing Pointer Years and Components of Resilience

Input/Output Functionality for "PO" and "POT" Message Translation Files

Data Generation with Poisson, Binary and Continuous Components

Data Generation with Poisson, Binary and Ordinal Components

Generation of Up to Four Different Types of Variables

Data Generation with Poisson, Binary, Ordinal and Normal Components

Simultaneous Generation of Count and Continuous Data

Simultaneous Generation of Multivariate Data with Poisson and Normal Marginals

Simulating Homogenous & Non-Homogenous Poisson Processes

Fit high dimensional mixtures of Poisson GLMs

Significance analysis of sequencing data based on a Poisson log linear model

Poisson-Tweedie exponential family models

Polytomous variable Latent Class Analysis

Political Data Interface in R

Datasets and Functions Featured in Pollock and Edwards R Companion to Essential of Political Analysis

Analysis of Aerobiological Data

Client for the HuffPost Pollster API

Toolkit for Corpus Analysis

Polynomial Spline Routines

Implementation of the Polya-Aeppli distribution

Simulating from the Polya Posterior

Sensitivity Indexes Calculated from Polynomial Chaos Expansions

Qualitative Palettes with Many Colors

Polygon Clipping

Polychoric and Polyserial Correlations

Cubature over Polygonal Domains

polydect

Simulate RNA-seq reads

Add-on to DESeq to improve p-values and q-values

Bayesian Population Genomics in Autopolyploids

A Collection of Functions to Implement a Class for Univariate Polynomial Manipulations

Polynomials in R

Paternity Exclusion in Autopolyploid Species

Genome wide analysis of RNA Polymerase II-based ChIP Seq data.

PolyPhen Predictions for Homo sapiens dbSNP build 131

Tools for Polyploid Microsatellite Analysis

Simulate and test marker dosage for dominant markers in autopolyploids

Bayesian mixture models for marker dosage in autopolyploids

Polytomous logistic regression for fixed and mixed effects

Trend Classification Algorithm

Bootstrapped Basis Regression with Oracle Model Selection

POM - Patch Occupancy Models

Pattern Oriented Modelling Information Criterion

Polynomial (ordinary differential equation) Model Search

Statistical Inference for Partially Observed Markov Processes

Partial Orders and Relations

A Flexible Syntax for Population Dynamic Modelling

Models for Simulating Wolf Populations

Construction and Analysis of Matrix Population Models

Demographic Modelling Using Projection Matrices

Population (and Individual) Optimal Experimental Design

Functions for Epidemiological Analysis using Population Data

Statistical and Population Genetics

Useful functions for (batch) file conversion and data resampling in microsatellite datasets

An Efficient Swiss Army Knife for Population Genomic Analyses

A Simple Framework to Analyse Population and Landscape Genetic Data

This is an R package that constructs and manipulates population graphs.

For interval estimation of mean of selected populations

poplarcdf

Probe sequence data for microarrays of type poplar

Tools for Simplifying the Population and Querying of SQLite Databases

Summary of Population Pharmacokinetic Analysis

Genetic Analysis of Populations with Mixed Reproduction

Read GenAlEx Files Directly from Excel

popRange: A spatially and temporally explicit forward genetic simulator

Reconstruct Human Populations of the Recent Past

Functions for Constructing and Evaluating Self-Organizing Maps

Estimate Smooth and Linear Trends from Population Count Survey Data

Models for Simulating Populations

Genomic Breeding Tools: Genetic Variance Prediction and Cross-Validation

Affymetrix porcine annotation data (chip porcine)

porcinecdf

Probe sequence data for microarrays of type porcine

Portmanteau Tests for Univariate and Multivariate Time Series Models

Analysing equity portfolios

Portfolio Analysis, Including Numerical Methods for Optimization of Portfolios

High Frequency Price Estimators by PortfolioEffect

High Frequency Portfolio Analytics by PortfolioEffect

Small/Large Sample Portfolio Optimization

Framework for simulating equity portfolio strategies

Portfolio Risk Analysis

Valid Post-Selection Inference for Linear LS Regression

A package to estimate posterior probabilities and perform model selection in change-point models using constrained HMM.

Tools for Interacting with 'PostgreSQL' / 'PostGIS' Databases

GWAS Post-Processing Utilities

Generalized Pareto Distribution and Peaks Over Threshold

Markov Chain Monte Carlo for Potts Models

Utility Functions of the Potts Models

The Phylogenetic Ornstein-Uhlenbeck Mixed Model

Powell's UObyQA algorithm

Computation of Power and Level Tables for Hypothesis Tests

Power and Sample-Size Distribution of 2-Stage Bioequivalence Studies

Power Analysis in Experimental Design

Power Estimates for ANOVA Designs

Power Analysis for Cluster Randomized Trials

Power and Sample Size Calculation for eQTL Analysis

Power Calculations for GxE and GxG Interactions for GWAS

Analysis of Heavy Tailed Distributions

Power/Sample Size Calculation for Mediation Analysis

Power analyses for the affected sib pair and the TDT design

Exponentiation Operations

Analysis of Power System

Power and Sample Size Calculation for Survival Analysis of Epidemiological Studies

Power and Sample Size Based on Two One-Sided t-Tests (TOST) for (Bio)Equivalence Studies

Power Analysis Tools for Multilevel Randomized Experiments

Statistical Test of Higher Order Intersections Among Multiple Sets

Person Parameter estimation

Partial and Semi-Partial (Part) Correlation

A package that contains the bait to prey directed graphs for protein-protein interactions.

Predict Protein-Protein Interactions Based on Functional and Topological Similarities

Protein-Protein Interaction Statistical Package

Penalized Partial Least Squares

Point pattern distances and prototypes.

Point Process Models with LASSO Penalties

Functions for PPS sampling

Point Process Statistics

Projection pursuit classification tree

Projection Pursuit Classification Tree Visualization

web tool for estimating under-five deaths caused by poor-quality antimalarials in sub-Saharan Africa

Identification of potential quadruplex forming sequences

Functions for Clustering of Presence-Absence, Abundance and Multilocus Genetic Data

Practical Numerical Math Functions

Tools for Designing and Weighting Survey Samples

Data analysis for cell-based functional assays

Provides a pragma / directive / keyword syntax for R.

Praise Users

Kvantitatiivsete meetodite praktikumi asjad / Functions used in the course "Quantitative methods in behavioural sciences" (SHPH.00.004), University of Tartu

Paired Response Curve

Testing Workbench for Precision-Recall Curves

Penalized Regression-Based Clustering Method

Person-Centered Analysis

Prediction Rule Ensembles

Probe region expression estimation for RNA-seq data for improved microarray comparability

Data for 'prebs' package

Precipitation Intensity, Concentration and Anomaly Analysis

Precipitation Statistics

Calculate Accurate Precision-Recall and ROC (Receiver Operator Characteristics) Curves

Position RElated Data Anlysis

Tools for Detecting Predatory Publishers and Journals

Predictive Inference on Totals and Averages of Finite Populations Segmented in Planned and Unplanned Domains.

Assessment of Risk Prediction Models

Tidy, Type-Safe 'prediction()' Methods

Inference for predictive networks designed for (but not limited to) genomic data

Prediction Interval Functions for Assessing Replication Study Results

Prediction Intervals for Three Basic Statistical Models

Calculate Predicted Means for Linear Models

Test Bench for Comparison of Data Prediction Models

Classification rule based on Bayesian mixture models with feature selection bias corrected

Predictive Approaches in Psychology

R Package for Pairwise Preference Elicitation

Utilities to Fit Paired Comparison Models for Preferences

Pre-Knitting Processing and Post HTML-Rendering Processing

Dirichlet Process Bayesian Clustering, Profile Regression

Preparing Experimental Data for Statistical Analysis

A collection of pre-processing functions

Tools for Preprocessing Combinations

Lightweight Data Quality Simulation for Classification

Tools for Visualization of Interdependent Data Quality Issues

R Markdown Templates to Preregister Scientific Studies

Presence-Absence Model Evaluation.

Interface for PreSens Fiber Optic Data

Predicting the Number of Species in a Random Sample

Probability-Scale Residuals and Residual Correlations

Diagnostics to Assess the Effects of Text Preprocessing Decisions

Pretty Print R Code in the Terminal

Creating Pretty Documents from R Markdown

publication-quality graphics.

Scale Bar, North Arrow, and Pretty Margins in R

Pretty Descriptive Stats

Pretty, Human Readable Formatting of Quantities

Tools for Prevalence Assessment Studies

Geostatistical Modelling of Spatially Referenced Prevalence Data

Estimating Regional Trends of a Prevalence from a DHS

Permutation Significance for Random Forests

Patient Rule Induction Method (PRIM)

Use Prime Factorization for Computations

Functions and data for A Primer of Ecology with R

Visually Assessing the Specificity and Informativeness of Primer Pairs

Generate and Test for Prime Numbers

primeviewcdf

Probe sequence data for microarrays of type primeview

Eigenvalues and Singular Values and Vectors from Large Matrices

PRIM Survival Regression Classification

Fits a Principal Curve in Arbitrary Dimension

Finding and plotting simple basis vectors for multivariate data

Systematic Conservation Prioritization in R

Analyzing Multiple Omics Data with an Offset Approach

Access Data from the Oregon State Prism Climate Project

Protocol Inspection and State Machine Analysis

Plot Flow Charts According to the "PRISMA" Statement

Differentially Private Regularized Logistic Regression

Prize: an R package for prioritization estimation based on analytic hierarchy process

Estimation of Prevalence Ratios using Logistic Models

Point-Process Response Model for Optogenetics

Elementary Probability on Finite Sample Spaces

Generating SAM file for PSMs in shotgun proteomics data

Connects to QBRC's ProbeMapper platform

Statistical Tools for Probing Moderation Effects

Probabilistic weather forecast using the GOP method

Probit with Spatial Dependence, SAR and SEM Models

probsvm: Class probability estimation for Support Vector Machines

Inference for the Stress-Strength Model R = P(Y<X)

Display and Analyze ROC Curves

Extraction of Bands from MODIS Calibrated Radiances MOD02 NRT

Ciphergen SELDI-TOF Processing

Statistical Process Control Charts

Process Data

Prediction of Oligomerization of Coiled Coil Proteins

Protein co-expression network analysis (ProCoNA).

SELDI-TOF data of Breast cancer samples

Product Density Estimation for ICA using tilted Gaussian density estimates

Research Project Directory Generator

Product-Limit Estimation for Censored Event History Analysis

Indices of Productivity Using Data Envelopment Analysis (DEA)

Product Plots for R

An Alternative Display Profiling Data as Tree Structure

Implements profile analysis described in Davison & Davenport (2002)

The package can prioritize candidate disease metabolites based on global functional relationships between metabolites in the context of metabolic pathways

Profile Dirichlet Process Mixtures

Grades Setting and Exam Maker

Profile Likelihood for a Parameter in Commonly Used Statistical Models

Tools for profiling inference functions for various model classes

Profile Analysis of Multivariate Data in R

Profile score distributions

Quickly Profile Data in R

Fit Projected 2D Profiles to Galaxy Images

Simple Memory Profiling for R

An alternative display for profiling information

Profile Output Processing Tools for R

Interactive Visualizations for Profiling R Code

Finding the Optimal Cluster Number Using Progeny Clustering

support package for "Programming Graphical User Interfaces in R"

Prognostic ROC curves for evaluating the predictive capacity of a binary test

Terminal Progress Bars

A simple interface to the PROJ.4 cartographic projections library

Automates the Creation of New Statistical Analysis Projects

Calculates and Analyzes the Proliferative Index

A unifying bioinformatics framework for spatial proteomics

Data accompanying the pRoloc package

Interactive visualisation of spatial proteomics data

PRojection Onto the Most Interesting Statistical Evidence

Biological Network Construction, Visualization and Analyses

Analyzing Combination of Proportions and Relative Risk

Propagation of Uncertainty

Various confidence interval methods for proportions

Propensity Clustering and Decomposition

PROspective Power Evaluation for RNAseq

Parse Java Properties Files for R Service Bus Applications

Automatic Forecasting Procedure

Inference on Single Binomial Proportion and Bayesian Computations

Feature (gene) selection based on the Proportional Overlapping Scores

Calculating Proportionality Between Vectors of Compositional Data

Propensity score methods for assigning treatment in randomized trials

Miscellaneous functions for processing and sample selection of vis-NIR diffuse reflectance data

Provides a GUI for DAPAR

Prostate Cancer Data

Statistical Tools for volume data from 2D Gel Electrophoresis

Generates Various Protein Descriptors for Machine Learning Algorithms

Protein Profiling

Optimization of a multi-stage proteomic study

Statistical Analysis of High Throughput Proteomics Data

Transform public proteomics data resources into Bioconductor Data Structures

An R package for proteomics data quality control

S4 generic functions for Bioconductor proteomics infrastructure

Protein (identification and) quantification based on peptide evidence

Prototype Object-Based Programming

Interpretable classification with prototypes

Hierarchical Clustering with Prototypes

PRocess TOol LIdar DAta in R

Fast and Simple Object Serialization to Protocol Buffers

The Proton Game

Inference on Prototypes from Clusters of Features

Generating Various Numerical Representation Schemes for Protein Sequences

Manipulate and Play 'ProTracker' Modules

Visualizing and Analyzing Mass Spectrometry Related Data in Proteomics

Statistical Toolbox for Sedimentary Provenance Analysis

Distance and Similarity Measures

Minimal Protein Set Explaining Peptide Spectrum Matches

Precision-Recall and ROC Curves for Weighted and Unweighted Data

Test of Periodicity using Response Surface Regression

Tools for Computing on the Language

Datasets and Functions Used in the Book 'Przewodnik po Pakiecie R'

Bootstrapping for Propensity Score Analysis

Propensity Score Analysis Graphics

Penalized Parametric and Semiparametric Bayesian Survival Models with Shrinkage and Grouping Priors

Analysis of Parent-Specific DNA Copy Numbers

Political Science Computational Laboratory, Stanford University

Standardizing Physiological Composite Risk Endpoints

Adaptive, Sine-Multitaper Power Spectral Density Estimation

Download Regularly Maintained Political Science Data Sets

Parameter Space Exploration with Latin Hypercubes

Population-Specific Expression Analysis.

Pseudo - observations

Methods for Evaluating Principal Surrogates of Treatment Response

Forecasting of Univariate Time Series Using the Pattern Sequence-Based Forecasting (PSF) Algorithm

Projected Spatial Gaussian Process (psgp) methods

Specificity Index Statistic

Proteomics Standard Initiative Common QUery InterfaCe

Build Panel Data Sets from PSID Raw Data

Several Local False Discovery Rate Estimators

Non-Linear Mixed-Effects modelling using Stochastic Differential Equations.

Population structure inference using mixture model

Particle Swarm Optimization

Spearman's rank correlation test

Penalized Smoothing Splines

Piecewise Exponential Model for Time to Progression and Time from Progression to Death

Probabilistic Suffix Trees and Variable Length Markov Chains

Assessing Pst Statistics

Specification Tests for Parametric Propensity Score Models

Simulations of grouped responses relative to baseline.

Various procedures used in psychometry

Procedures for Psychological, Psychometric, and Personality Research

Applied Psychometric Theory

Psychometric Mixture Models

Infrastructure for Psychometric Modeling

Recursive Partitioning Based on Psychometric Models

psygenet2r - An R package for querying PsyGeNET and to perform comorbidity studies in psychiatric disorders

Functions for analyzing psychophysical data in R

Produce Well-Formatted Tables for Psychological Research

Computational models for prospect theory and other theories of risky decision making

Principal Tensor Analysis on k Modes

Personalized Treatment Evaluator

Periodicity Tests in Short Time Series

Point-In-Polyhedron Test (2D and 3D)

Time Dependent Point Process Modelling

Stemming Algorithms for the Portuguese Language

Parametric Time Warping

Words Used in Portuguese Wikipedia

Quality Report Generation for MaxQuant Results

Bayesian Variable Selection with Hierarchical Priors

Performs simulation study to look for publication bias, using a technique described by Ioannidis and Trikalinos; Clin Trials. 2007;4(3):245-53.

Text Mining of PubMed Abstracts

'Pubmed' Word Clouds

Printing Results of Statistical Computing in a Publishable Way

R Interface to Pullword Service

Parallel Utilities for Lambda Selection along a Regularization Path

Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and exon arrays and Human Transcriptome Array 2.0)

Pumilio in R

Bayesian Estimation of Tumor Purity and Clonality

Estimating tumor purity, ploidy, LOH, and SNV status using hybrid capture NGS data

Purge Training Data from Models

Functional Programming Tools

Send Push Notifications using Pushover

PCA-based gene filtering for Affymetrix arrays

Population Viability Analysis with Data Cloning

Calculation and Application of p-Variation

Principal Variance Component Analysis (PVCA)

P-Values for Classification

Hierarchical Clustering with P-Values via Multiscale Bootstrap Resampling

Peptide Annotation and Data Visualization using Gviz

Computes phylogenetic eigenvectors regression (PVR) and phylogenetic signal-representation curve (PSR) (with null and Brownian expectations)

Rank Correlations

An R package to interact with the Project Vote Smart API for scientific research

Time Series Regression Using the Power Weighted Densities (PWD) Approach

Design and Monitoring of Survival Trials Accounting for Complex Situations

P-Value Weighting

Utilities for Working with Air Quality Monitoring Data

PWM enrichment analysis

D. melanogaster background for PWMEnrich

H. sapiens background for PWMEnrich

M. musculus background for PWMEnrich

Pathway-based data integration of omics data

Basic Functions for Power Analysis

Power in a Group Sequential Design

Statistical Power Simulation for Testing the Rasch Model

Penn World Table (Versions 5.6, 6.x, 7.x)

Penn World Table (Version 8.x)

Penn World Table (Version 9.x)

PC-Axis with R

R Interface to the PX-Web/PC-Axis API

Pycnophylactic Interpolation

Functions to draw population pyramid

Python String Methods in R

Use Python from Within R