leafcutter 0.2.9-foss-2020a-R-4.0.0-Python-2.7.18

Deprecated: Use of this version of leafcutter is deprecated. More information on our Applications Support and Retention Policy.

Leafcutter quantifies RNA splicing variation using short-read RNA-seq data. The core idea is to leverage spliced reads (reads that span an intron) to quantify (differential) intron usage across samples.

Accessing leafcutter 0.2.9-foss-2020a-R-4.0.0-Python-2.7.18

To load the module for leafcutter 0.2.9-foss-2020a-R-4.0.0-Python-2.7.18 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load leafcutter/0.2.9-foss-2020a-R-4.0.0-Python-2.7.18

BEAR Apps Version

2018b

Extensions

  • intervals 0.15.2
  • oompaBase 3.2.9
  • oompaData 3.1.1
  • shinycssloaders 1.0.0
  • TailRank 3.2.1

More Information

For more information visit the leafcutter website.

Dependencies

This version of leafcutter has a direct dependency on: DirichletMultinomial/1.32.0-foss-2020a-R-4.0.0 foss/2020a Perl/5.30.2-GCCcore-9.3.0 Python/2.7.18-GCCcore-9.3.0 R/4.0.0-foss-2020a regtools/0.5.2-foss-2020a SAMtools/1.10-GCC-9.3.0

Last modified on 11th March 2021