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Bioconductor - countsimQC

countsimQC

This is the released version of countsimQC; for the devel version, see countsimQC.

Compare Characteristic Features of Count Data Sets

Bioconductor version: Release (3.21)

countsimQC provides functionality to create a comprehensive report comparing a broad range of characteristics across a collection of count matrices. One important use case is the comparison of one or more synthetic count matrices to a real count matrix, possibly the one underlying the simulations. However, any collection of count matrices can be compared.

Author: Charlotte Soneson [aut, cre] ORCID: 0000-0003-3833-2169

Maintainer: Charlotte Soneson <charlottesoneson at gmail.com>

Citation (from within R, enter citation("countsimQC")): Installation

To install this package, start R (version "4.5") and enter:


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

BiocManager::install("countsimQC")

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("countsimQC")
Details biocViews ExperimentalDesign, ImmunoOncology, Microbiome, QualityControl, RNASeq, ReportWriting, SingleCell, Software, Visualization Version 1.26.0 In Bioconductor since BioC 3.8 (R-3.5) (6.5 years) License GPL (>=2) Depends R (>= 3.5) Imports rmarkdown (>= 2.5), edgeR, DESeq2(>= 1.16.0), dplyr, tidyr, ggplot2, grDevices, tools, SummarizedExperiment, genefilter, DT, GenomeInfoDbData, caTools, randtests, stats, utils, methods, ragg System Requirements URL https://github.com/csoneson/countsimQC Bug Reports https://github.com/csoneson/countsimQC/issues See More Package Archives

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

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