countsimQC
Compare Characteristic Features of Count Data Sets
Bioconductor version: Release (3.19)
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]
Maintainer: Charlotte Soneson <charlottesoneson at gmail.com>
citation("countsimQC")
):
Installation
To install this package, start R (version "4.4") 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")
countsimQC User Guide | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | ExperimentalDesign, ImmunoOncology, Microbiome, QualityControl, RNASeq, ReportWriting, SingleCell, Software, Visualization |
Version | 1.22.0 |
In Bioconductor since | BioC 3.8 (R-3.5) (6 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
Suggests | knitr, testthat |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | muscat |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | countsimQC_1.22.0.tar.gz |
Windows Binary | countsimQC_1.22.0.zip |
macOS Binary (x86_64) | countsimQC_1.22.0.tgz |
macOS Binary (arm64) | countsimQC_1.22.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/countsimQC |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/countsimQC |
Bioc Package Browser | https://code.bioconductor.org/browse/countsimQC/ |
Package Short Url | https://bioconductor.org/packages/countsimQC/ |
Package Downloads Report | Download Stats |