CCR Collaborative Bioinformatics Resource [CCBR]

There is a newer version of the record available.

Published July 17, 2025 | Version v0.3.3
Software Open

SINCLAIR: SINgle CelL AnalysIs Resource

Authors/Creators

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

Description

  • Improve help message for sinclair run. (#153, @kelly-sovacool)
    • the default --mode is now slurm.
  • The run_cellranger parameter is now a boolean set to true by default. (#155, @kelly-sovacool)
    • Set this to true if the input is fastq files or false if filtered h5 files.
  • New profiles:
    • test_h5 for starting from h5 files. (#155, @kelly-sovacool)
    • debug, which sets process.scratch to false so intermediate files will be in the workDir. (#155, @kelly-sovacool)
  • Fix file paths for environments and repos on biowulf. (#162, @wong-nw)

Notes

Please cite SINCLAIR as below:

Files

CCBR/SINCLAIR-v0.3.3.zip

Files (37.7 MB)

Name Size Download all
md5:cd75095eabaae3cc93920175d56d8ccb
37.7 MB Preview Download

Additional details

Related works

Is supplement to
Software: https://github.com/CCBR/SINCLAIR/tree/v0.3.3 (URL)

Software

Repository URL
https://github.com/CCBR/SINCLAIR