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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 (3.19)

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 "4.4") and enter:


if (!require("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

Reference Manual PDF

Details

biocViews DifferentialExpression, GeneExpression, ImmunoOncology, Normalization, Preprocessing, RNASeq, Sequencing, Software
Version 1.43.0
In Bioconductor since BioC 2.12 (R-3.0) (11 years)
License Artistic-2.0
Depends R (>= 4.0.0)
Imports edgeR, DESeq2, BiocParallel, Biobase, utils, stats, grDevices, graphics, methods
System Requirements
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Suggests EDASeq, testthat, knitr, rmarkdown, BiocStyle
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Package Archives

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

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
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/
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