coseq

DOI: 10.18129/B9.bioc.coseq    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see coseq.

Co-Expression Analysis of Sequencing Data

Bioconductor version: 3.13

Co-expression analysis for expression profiles arising from high-throughput sequencing data. Feature (e.g., gene) profiles are clustered using adapted transformations and mixture models or a K-means algorithm, and model selection criteria (to choose an appropriate number of clusters) are provided.

Author: Andrea Rau [cre, aut] , Cathy Maugis-Rabusseau [ctb], Antoine Godichon-Baggioni [ctb]

Maintainer: Andrea Rau <andrea.rau at inrae.fr>

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

Installation

To install this package, start R (version "4.1") and enter:

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

BiocManager::install("coseq")

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("coseq")

 

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Details

biocViews GeneExpression, ImmunoOncology, RNASeq, Sequencing, Software
Version 1.16.0
In Bioconductor since BioC 3.5 (R-3.4) (4.5 years)
License GPL-3
Depends R (>= 4.0.0), SummarizedExperiment, S4Vectors
Imports edgeR, DESeq2, capushe, Rmixmod, e1071, BiocParallel, ggplot2, scales, HTSFilter, corrplot, HTSCluster, grDevices, graphics, stats, methods, compositions, mvtnorm
LinkingTo
Suggests Biobase, knitr, rmarkdown, testthat, BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package coseq_1.16.0.tar.gz
Windows Binary coseq_1.16.0.zip
macOS 10.13 (High Sierra) coseq_1.16.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/coseq
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/coseq
Package Short Url https://bioconductor.org/packages/coseq/
Package Downloads Report Download Stats

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