recipe r-wgcna

Functions necessary to perform Weighted Correlation Network Analysis on high-dimensional data as originally described in Horvath and Zhang (2005) <doi:10.2202/1544-6115.1128> and Langfelder and Horvath (2008) <doi:10.1186/1471-2105-9-559>. Includes functions for rudimentary data cleaning, construction of correlation networks, module identification, summarization, and relating of variables and modules to sample traits. Also includes a number of utility functions for data manipulation and visualization.

Homepage:

http://horvath.genetics.ucla.edu/html/CoexpressionNetwork/Rpackages/WGCNA/

License:

GPL3 / GPL (>= 2)

Recipe:

/r-wgcna/meta.yaml

Links:

biotools: wgcna, doi: 10.1186/1471-2105-9-559

package r-wgcna

Versions:

1.71-3,  1.71-2,  1.71-0,  1.69-5,  1.69-4,  1.69-3,  1.69-2,  1.69-1,  1.69-0, 

1.71-3,  1.71-2,  1.71-0,  1.69-5,  1.69-4,  1.69-3,  1.69-2,  1.69-1,  1.69-0,  1.68-1,  1.68-0,  1.67-0,  1.66-1,  1.66-0,  1.64_1-0,  1.61-0,  1.51-1,  1.51-0

Depends:

• bioconductor-annotationdbi

• bioconductor-go.db

• bioconductor-impute

• bioconductor-preprocesscore

• libgcc-ng >=12

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

• r-doparallel

• r-dynamictreecut >=1.62

• r-fastcluster

• r-foreach

• r-hmisc

• r-matrixstats >=0.8.1

• r-rcpp >=0.11.0

• r-robust

• r-survival

Required By:

• bioconductor-macarron

• bioconductor-bionero

• bioconductor-probatch

• bioconductor-mbomic

• bioconductor-gmicr

• bioconductor-moda

• bioconductor-cemitool

• bioconductor-pigengene

• bioconductor-spatialheatmap

• bioconductor-regenrich

• bioconductor-diffcoexp

• bioconductor-mcbiclust

• bioconductor-fastliquidassociation

• bioconductor-bionar

• r-netcomi

• bioconductor-netboost

• bioconductor-netsam

• bioconductor-tin

• bioconductor-gwena

• bioconductor-csdr

• bioconductor-seq2pathway

• bioconductor-spsimseq

• r-recetox-xmsannotator

• bioconductor-trena

• bioconductor-mirsm

• bioconductor-epihet

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install r-wgcna

and update with:

conda update r-wgcna

or use the docker container:

docker pull quay.io/biocontainers/r-wgcna:<tag>

(see r-wgcna/tags for valid values for <tag>)

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