HTSFilter

Filter replicated high-throughput transcriptome sequencing data

Bioconductor version: Release (2.12)

This package implements a filtering procedure for replicated transcriptome sequencing data based on a global Jaccard similarity index in order to identify genes with low, constant levels of expression across one or more experimental conditions.

Author: Andrea Rau, Melina Gallopin, Gilles Celeux, and Florence Jaffrezic

Maintainer: Andrea Rau <andrea.rau at jouy.inra.fr>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("HTSFilter")

Documentation

PDF	R Script	HTSFilter Vignette
PDF		Reference Manual
Text		NEWS

Details

biocViews	DifferentialExpression, HighThroughputSequencing, Preprocessing, RNAseq, Software
Version	1.0.1
In Bioconductor since	BioC 2.13 (R-2.18)
License	Artistic-2.0
Depends	methods, Biobase(>= 2.16.0), R (>= 2.10.0)
Imports	DESeq(>= 1.8.3), edgeR(>= 2.6.12), DESeq2, GenomicRanges, IRanges
Suggests	EDASeq(>= 1.2.0)
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source	HTSFilter_1.0.1.tar.gz
Windows Binary	HTSFilter_1.0.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	HTSFilter_1.0.1.tgz
Package Downloads Report	Download Stats

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