recipe bioconductor-trena

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

Homepage

https://bioconductor.org/packages/3.9/bioc/html/trena.html

License

GPL-3

Recipe

/bioconductor-trena/meta.yaml

package bioconductor-trena

(downloads) docker_bioconductor-trena

Versions

1.4.2-0

Depends bioconductor-annotationdbi

>=1.44.0,<1.45.0

Depends bioconductor-biocparallel

>=1.16.0,<1.17.0

Depends bioconductor-biomart

>=2.38.0,<2.39.0

Depends bioconductor-biostrings

>=2.50.0,<2.51.0

Depends bioconductor-bsgenome

>=1.50.0,<1.51.0

Depends bioconductor-bsgenome.hsapiens.ucsc.hg19

>=1.4.0,<1.5.0

Depends bioconductor-bsgenome.hsapiens.ucsc.hg38

>=1.4.0,<1.5.0

Depends bioconductor-bsgenome.mmusculus.ucsc.mm10

>=1.4.0,<1.5.0

Depends bioconductor-genomicranges

>=1.34.0,<1.35.0

Depends bioconductor-motifdb

>=1.24.0,<1.25.0

Depends bioconductor-org.hs.eg.db

>=3.7.0,<3.8.0

Depends bioconductor-snplocs.hsapiens.dbsnp150.grch38

>=0.99.0,<0.100.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-dbi

Depends r-flare

Depends r-glmnet

>=2.0.3

Depends r-lassopv

Depends r-randomforest

Depends r-rmariadb

Depends r-rpostgresql

Depends r-rsqlite

Depends r-vbsr

Requirements

Installation

With an activated Bioconda channel (see 2. 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>)