HTSFilter

DOI: 10.18129/B9.bioc.HTSFilter    

This is the development version of HTSFilter; for the stable release version, see HTSFilter.

Filter replicated high-throughput transcriptome sequencing data

Bioconductor version: Development (3.13)

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 [cre, aut] , Melina Gallopin [ctb], Gilles Celeux [ctb], Florence Jaffr├ęzic [ctb]

Maintainer: Andrea Rau <andrea.rau at inrae.fr>

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

Installation

To install this package, start R (version "4.1") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("HTSFilter")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("HTSFilter")

 

HTML R Script HTSFilter
PDF   Reference Manual
Text   NEWS

Details

biocViews DifferentialExpression, GeneExpression, ImmunoOncology, Normalization, Preprocessing, RNASeq, Sequencing, Software
Version 1.31.2
In Bioconductor since BioC 2.12 (R-3.0) (8 years)
License Artistic-2.0
Depends R (>= 4.0.0)
Imports edgeR, DESeq2, BiocParallel, Biobase, utils, stats, grDevices, graphics, methods
LinkingTo
Suggests EDASeq, testthat, knitr, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me coseq
Suggests Me HTSCluster
Links To Me
Build Report  

Package Archives

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

Source Package HTSFilter_1.31.2.tar.gz
Windows Binary HTSFilter_1.31.2.zip
macOS 10.13 (High Sierra) HTSFilter_1.31.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/HTSFilter
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/HTSFilter
Package Short Url https://bioconductor.org/packages/HTSFilter/
Package Downloads Report Download Stats

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