CCR Collaborative Bioinformatics Resource [CCBR]

There is a newer version of the record available.

Published September 16, 2024 | Version v0.11.0
Software Open

CHARLIE: Circrnas in Host And viRuses anaLysis pIpEline

Authors/Creators

  • 1. Advanced Biomedical Computational Science, Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA

Description

  • Major updates to convert CHARLIE from a biowulf-specific to a platform-agnostic pipeline (#102, @kelly-sovacool):
    • All rules now use containers instead of envmodules.
    • Default config and cluster config files are provided for use on biowulf and FRCE.
    • New entry TEMPDIR in the config file sets the temporary directory location for rules that require transient storage.
    • New --singcache argument to provide a singularity cache dir location. The singularity cache dir is automatically set inside /data/$USER/ or $WORKDIR/ if --singcache is not provided.
  • Minor documentation improvements. (#114, @kelly-sovacool)

Notes

Please cite CHARLIE as below.

Files

CCBR/CHARLIE-v0.11.0.zip

Files (133.3 MB)

Name Size Download all
md5:eca04c9732c5de448b6fb86359f7c5a5
133.3 MB Preview Download

Additional details

Related works

Is supplement to
Software: https://github.com/CCBR/CHARLIE/tree/v0.11.0 (URL)