To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("diffloop")

In most cases, you don't need to download the package archive at all.

diffloop

This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see diffloop.

Identifying differential DNA loops from chromatin topology data

Bioconductor version: 3.4

A suite of tools for subsetting, visualizing, annotating, and statistically analyzing the results of one or more ChIA-PET experiments or other assays that infer chromatin loops.

Author: Caleb Lareau [aut, cre], Martin Aryee [aut]

Maintainer: Caleb Lareau <caleblareau at g.harvard.edu>

Citation (from within R, enter citation("diffloop")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("diffloop")

Documentation

HTML R Script diffloop: Identifying differential DNA loops from chromatin topology data.
PDF Reference Manual
Text NEWS
Text LICENSE

Details

biocViews DataImport, DataRepresentation, GO, Preprocessing, QualityControl, Software, Visualization
Version 1.2.2
In Bioconductor since BioC 3.3 (R-3.3) (1 year)
License MIT + file LICENSE
Depends
Imports methods, GenomicRanges, foreach, plyr, dplyr, reshape2, ggplot2, matrixStats, Sushi, edgeR, locfit, statmod, biomaRt, GenomeInfoDb, S4Vectors, IRanges, grDevices, graphics, stats, utils, Biobase, readr, data.table, rtracklayer, pbapply, limma
LinkingTo
Suggests DESeq2, diffloopdata, ggrepel, knitr, rmarkdown, testthat
SystemRequirements
Enhances
URL https://github.com/aryeelab/diffloop
BugReports https://github.com/aryeelab/diffloop/issues
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source diffloop_1.2.2.tar.gz
Windows Binary diffloop_1.2.2.zip
Mac OS X 10.9 (Mavericks) diffloop_1.2.2.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/diffloop/tree/release-3.4
Package Short Url http://bioconductor.org/packages/diffloop/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

AltStyle によって変換されたページ (->オリジナル) /