countsimQC
This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see countsimQC.
Compare Characteristic Features of Count Data Sets
Bioconductor version: 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("countsimQC")):
Installation
To install this package, start R (version "3.5") 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")| countsimQC User Guide | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ExperimentalDesign, ImmunoOncology, Microbiome, QualityControl, RNASeq, ReportWriting, SingleCell, Software, Visualization |
| Version | 1.0.1 |
| In Bioconductor since | BioC 3.8 (R-3.5) (5.5 years) |
| 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 |
| System Requirements | |
| URL |
See More
| Suggests | knitr, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | countsimQC_1.0.1.tar.gz |
| Windows Binary | countsimQC_1.0.1.zip |
| Mac OS X 10.11 (El Capitan) | countsimQC_1.0.1.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 |
| Old Source Packages for BioC 3.8 | Source Archive |