RcisTarget 1.8.0-foss-2020a-R-4.0.0

RcisTarget identifies transcription factor binding motifs (TFBS) over-represented on a gene list. In a first step, RcisTarget selects DNA motifs that are significantly over-represented in the surroundings of the transcription start site (TSS) of the genes in the gene-set. This is achieved by using a database that contains genome-wide cross-species rankings for each motif. The motifs that are then annotated to TFs and those that have a high Normalized Enrichment Score (NES) are retained. Finally, for each motif and gene-set, RcisTarget predicts the candidate target genes (i.e. genes in the gene-set that are ranked above the leading edge).

Accessing RcisTarget 1.8.0-foss-2020a-R-4.0.0

To load the module for RcisTarget 1.8.0-foss-2020a-R-4.0.0 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load RcisTarget/1.8.0-foss-2020a-R-4.0.0

BEAR Apps Version

2021a

Extensions

  • AUCell 1.10.0
  • RcisTarget 1.8.0

More Information

For more information visit the RcisTarget website.

Dependencies

This version of RcisTarget has a direct dependency on: foss/2020a R/4.0.0-foss-2020a R-bundle-Bioconductor/3.11-foss-2020a-R-4.0.0

Last modified on 12th January 2021