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Repository rcas

Name: rcas

Owner: rnateam

Synopsis: RCAS (RNA Centric Annotation System) for functional analysis of transcriptome-wide regions detected by high-throughput experiments

Detailed description:

RCAS takes input peak intervals in BED format from CLIP-seq data and
automatically annotates features, provides information about genomic coverage,
detects motifs, and runs GO term and gene set enrichment analysis. RCAS can perform
a single dataset analysis as well as a comparative multi dataset analysis.

Content homepage: https://github.com/BIMSBbioinfo/RCAS

Development repository: https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/rcas/

Link to this repository revision: https://toolshed.g2.bx.psu.edu/view/rnateam/rcas/aa9579837a2e

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/rnateam/rcas

Type: unrestricted

Revision: 0:aa9579837a2e

This revision can be installed: True

Times cloned / installed: 912

Repository README files - may contain important installation or license information

Readme files

Important notes ---------------- - the dependencies of the tool are handled by the conda dependency resolver - to install the dependencies, the galaxy administrator needs to configure to ensure the conda channels - bioconda, r, conda-forge, defaults - by default, the conda installation includes hg19 - to enable analysis for mm9, ce10, dm3, the administrator needs to separately install the relevant packages from the channel bioconda - bioconductor-bsgenome.dmelanogaster.ucsc.dm3 - bioconductor-bsgenome.celegans.ucsc.ce10 - bioconductor-bsgenome.mmusculus.ucsc.mm9 - bioconductor-org.mm.eg.db - bioconductor-org.ce.eg.db - bioconductor-org.dm.eg.db