recipe r-easydifferentialgenecoexpression

A function that reads in the GEO code of a list of probesets or gene symbols, a gene expression dataset GEO accession code, the name of the dataset feature discriminating the two conditions for the differential coexpression, and the values of the two different conditions for the differential coexpression, and returns the significant pairs of genes/probesets with highest differential coexpression (p-value < 0.005). If the input gene list is made of gene symbols, this package associates the probesets to these gene symbols, if found. Platforms available: GPL80, GPL8300, GPL80, GPL96, GPL570, GPL571, GPL20115, GPL1293, GPL6102, GPL6104, GPL6883, GPL6884, GPL13497, GPL14550, GPL17077, GPL6480. GEO: Gene Expression Omnibus. ID: identifier code. The GEO datasets are downloaded from the URL <https://ftp.ncbi.nlm.nih.gov/geo/series/>.

Homepage:

https://github.com/davidechicco/easyDifferentialGeneCoexpression

License:

GPL3 / GPL-3.0-only

Recipe:

/r-easydifferentialgenecoexpression/meta.yaml

package r-easydifferentialgenecoexpression

(downloads) docker_r-easydifferentialgenecoexpression

Versions:

1.0-11.0-0

Depends:
Required By:

Installation

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

conda install r-easydifferentialgenecoexpression

and update with:

conda update r-easydifferentialgenecoexpression

or use the docker container:

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

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

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