There is a newer version of the record available.

Published October 16, 2017 | Version 0.5.1
Software Open

CGATOxford/UMI-tools 0.5.1

Authors/Creators

  • 1. University of Sheffield
  • 2. Yeo Lab
  • 3. Stony Brook University
  • 4. Boston University
  • 5. @bihealth
  • 6. MRC

Description

Minor update. Improves detection of duplicate reads with paired end reads, reduces run time with dedup --output-stats and a few simple debugs.

  • Improved identification of duplicate reads from paired end reads - will now use the position of the FIRST splice junction in the read (in reference coords) (#187)
  • Speeds up dedup when running with --output-stats - (#184)
  • Fixes bugs:
    • whitelist --set-cell-number --plot-prefix -> unwanted error
    • dedup gave non-informative error when input contains zero valid reads/read pairs. Now raises a warning but exits with status 0 (#190, #195)
    • count errored if gene identifier contained a ":" (#198)
  • Renames --whole-contig option to --buffer-whole-contig to avoid confusion with per-contig option. --whole-contig option will still work but will not be visible in documentation (#196)

Files

CGATOxford/UMI-tools-0.5.1.zip

Files (22.1 MB)

Name Size Download all
md5:9c76105865f654fa1747330504cfd4b4
22.1 MB Preview Download

Additional details

Related works

Is supplement to
https://github.com/CGATOxford/UMI-tools/tree/0.5.1 (URL)