recipe bioconductor-trena

Fit transcriptional regulatory networks using gene expression, priors, machine learning

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/trena.html

License:

GPL-3

Recipe:

/bioconductor-trena/meta.yaml

Methods for reconstructing transcriptional regulatory networks, especially in species for which genome-wide TF binding site information is available.

package bioconductor-trena

Versions:

1.20.0-0,  1.16.0-0,  1.14.0-0,  1.11.6-0,  1.8.0-0,  1.6.1-0,  1.4.2-0

Depends:

• bioconductor-annotationdbi >=1.60.0,<1.61.0

• bioconductor-biomart >=2.54.0,<2.55.0

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-bsgenome >=1.66.0,<1.67.0

• bioconductor-bsgenome.hsapiens.ucsc.hg19 >=1.4.0,<1.5.0

• bioconductor-bsgenome.hsapiens.ucsc.hg38 >=1.4.0,<1.5.0

• bioconductor-bsgenome.mmusculus.ucsc.mm10 >=1.4.0,<1.5.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-motifdb >=1.40.0,<1.41.0

• bioconductor-org.hs.eg.db >=3.16.0,<3.17.0

• bioconductor-snplocs.hsapiens.dbsnp150.grch38 >=0.99.0,<0.100.0

• r-base >=4.2,<4.3.0a0

• r-dbi

• r-glmnet >=2.0.3

• r-lassopv

• r-randomforest

• r-rmysql

• r-rpostgresql

• r-rsqlite

• r-wgcna

• r-xgboost

Required By:

Installation

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

conda install bioconductor-trena

and update with:

conda update bioconductor-trena

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-trena:<tag>

(see bioconductor-trena/tags for valid values for <tag>)

Download stats

Link to this page

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