countsimQC

DOI: 10.18129/B9.bioc.countsimQC    

Compare Characteristic Features of Count Data Sets

Bioconductor version: Release (3.8)

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

Maintainer: Charlotte Soneson <charlottesoneson at gmail.com>

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

Installation

To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("countsimQC", version = "3.8")

Documentation

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

browseVignettes("countsimQC")

 

HTML R Script countsimQC User Guide
PDF   Reference Manual
Text   NEWS

Details

biocViews ExperimentalDesign, Microbiome, QualityControl, RNASeq, ReportWriting, SingleCell, Software, Visualization
Version 1.0.0
License GPL (>=2)
Depends R (>= 3.5)
Imports rmarkdown (>= 0.9.5), edgeR, DESeq2(>= 1.16.0), dplyr, tidyr, ggplot2, grDevices, tools, SummarizedExperiment, genefilter, DT, GenomeInfoDbData, caTools, randtests, stats, utils, methods
LinkingTo
Suggests knitr, testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
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Build Report  

Package Archives

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

Source Package countsimQC_1.0.0.tar.gz
Windows Binary countsimQC_1.0.0.zip
Mac OS X 10.11 (El Capitan) countsimQC_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/countsimQC
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/countsimQC
Package Short Url http://bioconductor.org/packages/countsimQC/
Package Downloads Report Download Stats

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