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HTSFilter

Filter replicated high-throughput transcriptome sequencing data

Bioconductor version: 3.23 · Package version: 1.52.0

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.

Installation

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

BiocManager::install("HTSFilter")

Details

MaintainerAndrea Rau <andrea.rau@inrae.fr>
AuthorAndrea Rau [cre, aut] (ORCID: <https://orcid.org/0000-0001-6469-488X>), Melina Gallopin [ctb], Gilles Celeux [ctb], Florence Jaffrézic [ctb]
LicenseArtistic-2.0
Downloads rank650
Source branchRELEASE_3_23
biocViewsDifferentialExpression, GeneExpression, ImmunoOncology, Normalization, Preprocessing, RNASeq, Sequencing, Software

Documentation

Download

Dependencies

Depends: R (>= 4.0.0)

Imports: edgeR, DESeq2, BiocParallel, Biobase, utils, stats, grDevices, graphics, methods

Suggests: EDASeq, testthat, knitr, rmarkdown, BiocStyle

Reverse dependencies

Imports Me (1): coseq

Suggests Me (2): HTSCluster, inDAGO