r3Cseq

Analysis of Chromosome Conformation Capture and Next-generation Sequencing (3C-seq)

Bioconductor version: Release (2.14)

This package is an implementation of data analysis for the long-range interactions from 3C-seq assay.

Author: Supat Thongjuea, MRC Molecular Haematology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, UK <supat.thongjuea at ndcls.ox.ac.uk>

Maintainer: Supat Thongjuea <supat.thongjuea at ndcls.ox.ac.uk>

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("r3Cseq")

Citation (from within R, enter citation("r3Cseq")):

Documentation

PDF R Script r3Cseq
PDF   Reference Manual
Text   NEWS

Details

biocViews Preprocessing, Sequencing, Software
Version 1.10.0
In Bioconductor since BioC 2.9 (R-2.14)
License GPL-3
Depends GenomicRanges, Rsamtools, data.table, rtracklayer, VGAM, qvalue, RColorBrewer, sqldf, methods
Imports
Suggests BSgenome.Mmusculus.UCSC.mm9.masked, BSgenome.Hsapiens.UCSC.hg18.masked, BSgenome.Hsapiens.UCSC.hg19.masked
System Requirements
URL http://r3cseq.genereg.net
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source r3Cseq_1.10.0.tar.gz
Windows Binary r3Cseq_1.10.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) r3Cseq_1.10.0.tgz
Mac OS X 10.9 (Mavericks) r3Cseq_1.10.0.tgz
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