DOI: 10.18129/B9.bioc.SeqGate  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see SeqGate.

Filtering of Lowly Expressed Features

Bioconductor version: 3.16

Filtering of lowly expressed features (e.g. genes) is a common step before performing statistical analysis, but an arbitrary threshold is generally chosen. SeqGate implements a method that rationalize this step by the analysis of the distibution of counts in replicate samples. The gate is the threshold above which sequenced features can be considered as confidently quantified.

Author: Christelle Reynès [aut], Stéphanie Rialle [aut, cre]

Maintainer: Stéphanie Rialle <stephanie.rialle at>

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


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biocViews DifferentialExpression, GeneExpression, RNASeq, Sequencing, Software, Transcriptomics
Version 1.8.0
In Bioconductor since BioC 3.12 (R-4.0) (2.5 years)
License GPL (>= 2.0)
Depends S4Vectors, SummarizedExperiment, GenomicRanges
Imports stats, methods, BiocManager
Suggests testthat (>= 3.0.0), edgeR, BiocStyle, knitr, rmarkdown
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