recipe bioconductor-dce

Pathway Enrichment Based on Differential Causal Effects

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-dce/meta.yaml

Compute differential causal effects (dce) on (biological) networks. Given observational samples from a control experiment and non-control (e.g., cancer) for two genes A and B, we can compute differential causal effects with a (generalized) linear regression. If the causal effect of gene A on gene B in the control samples is different from the causal effect in the non-control samples the dce will differ from zero. We regularize the dce computation by the inclusion of prior network information from pathway databases such as KEGG.

package bioconductor-dce

Versions:

1.6.0-0,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-edger >=3.40.0,<3.41.0

• bioconductor-epinem >=1.22.0,<1.23.0

• bioconductor-graph >=1.76.0,<1.77.0

• bioconductor-graphite >=1.44.0,<1.45.0

• bioconductor-mnem >=1.14.0,<1.15.0

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

• bioconductor-rgraphviz >=2.42.0,<2.43.0

• r-assertthat

• r-base >=4.2,<4.3.0a0

• r-dplyr

• r-expm

• r-ggplot2

• r-ggraph

• r-glm2

• r-glue

• r-harmonicmeanp

• r-igraph

• r-logger

• r-magrittr

• r-mass

• r-matrix

• r-metap

• r-naturalsort

• r-pcalg

• r-ppcor

• r-purrr

• r-reshape2

• r-rlang

• r-shadowtext

• r-tidygraph

• r-tidyverse

Required By:

Installation

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

conda install bioconductor-dce

and update with:

conda update bioconductor-dce

or use the docker container:

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

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

Download stats

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