BioConductor

annotatr 1.6.0

Annotation of Genomic Regions to Genomic Annotations

Released Apr 11, 2018 by Raymond G. Cavalcante

This package cannot yet be used with Renjin it depends on other packages which are not available: dplyr 0.7.6, AnnotationHub 2.12.0, regioneR 1.12.0, rtracklayer 1.40.5, and GenomicFeatures 1.32.2

Dependencies

rtracklayer 1.40.5 AnnotationHub 2.12.0 dplyr 0.7.6 regioneR 1.12.0 GenomicFeatures 1.32.2 GenomeInfoDb 1.16.0 S4Vectors 0.18.3 reshape2 1.4.3 AnnotationDbi 1.42.1 ggplot2 3.0.0 GenomicRanges 1.32.6 IRanges 2.14.10 readr 1.1.1

Given a set of genomic sites/regions (e.g. ChIP-seq peaks, CpGs, differentially methylated CpGs or regions, SNPs, etc.) it is often of interest to investigate the intersecting genomic annotations. Such annotations include those relating to gene models (promoters, 5'UTRs, exons, introns, and 3'UTRs), CpGs (CpG islands, CpG shores, CpG shelves), or regulatory sequences such as enhancers. The annotatr package provides an easy way to summarize and visualize the intersection of genomic sites/regions with genomic annotations.

Source

R

Release History