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0.4.0

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@carlvitzthum carlvitzthum released this 17 Oct 22:15
· 100 commits to master since this release
0.4.0
1b48aff

Large patch, should fix most memory issues and improve runtimes:

Changed run parameters. Removed -n and -e; added -v (--version) and -w (--warnings)

  • Improved memory usage
  • Improved runtime (many thanks to Nezar Abdennur)
  • hic2cool now does a 'direct' conversion of files and does not fail on missing chr-chr contacts or missing * normalization vectors. Finding these issues will cause warnings to be printed (controlled by -w flag)
  • No longer uses the 'weights' column, which is reserved for cooler
  • No longer takes a normalization type argument. All normalization vectors from the hic file are automatically added to the bins table in the output .cool
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