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@nservant nservant released this 25 May 08:28
· 165 commits to master since this release
1.3.0
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Learn about vigilant mode.

v1.3.0 - 2021-22-05

Added

  • Change the /tmp/ folder to ./tmp/ folder so that all tmp files are now in the work directory (#24)
  • Add --hicpro_maps options to generate the raw and normalized HiC-Pro maps. The default is now to use cooler
  • Add chromosome compartments calling with cooltools (#53)
  • Add HiCExplorer distance decay quality control (#54)
  • Add HiCExplorer TADs calling (#55)
  • Add insulation score TADs calling (#55)
  • Generate cooler/txt contact maps
  • Normalize Hi-C data with cooler instead of iced
  • New --digestion parameter to automatically set the restriction_site and ligation_site motifs
  • New --keep_multi and keep_dup options. Default: false
  • Template update for nf-core/tools

Fixed

  • Fix bug in stats report which were not all correcly exported in the results folder
  • Fix recurrent bug in input file extension (#86)
  • Fix bug in --bin_size parameter (#85)
  • --min_mapq is ignored if --keep_multi is used

Deprecated

  • --rm_dup and --rm_multi are replaced by --keep_dups and --keep_multi
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