recipe bioconductor-htsanalyzer

Gene set over-representation, enrichment and network analyses for high-throughput screens






This package provides classes and methods for gene set over-representation, enrichment and network analyses on high-throughput screens. The over-representation analysis is performed based on hypergeometric tests. The enrichment analysis is based on the GSEA algorithm (Subramanian et al. PNAS 2005). The network analysis identifies enriched subnetworks based on algorithms from the BioNet package (Beisser et al., Bioinformatics 2010). A pipeline is also specifically designed for cellHTS2 object to perform integrative network analyses of high-throughput RNA interference screens. The users can build their own analysis pipeline for their own data set based on this package.

package bioconductor-htsanalyzer

(downloads) docker_bioconductor-htsanalyzer


2.38.0-0, 2.36.0-1, 2.34.0-0

Required By


With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-htsanalyzer

and update with:

conda update bioconductor-htsanalyzer

or use the docker container:

docker pull<tag>

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