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@totakke totakke released this 28 Jun 07:43
· 910 commits to master since this release
0.4.0
ee2ba4c

BREAKING

Namespaces of most APIs are changed in this release.

  • cljam.io.*** - reader/writer functions of various formats such as SAM, VCF, and FASTA.
  • cljam.algo.*** - algorithms such as sort, indexing, and pileup.
  • cljam.util.*** - utilities such as chromosome name normalization.
  • cljam.tools.*** - tools such as command-line interface.

Added

  • Add protocols for I/O APIs. #78
  • Add FASTAWriter and TwoBitWriter. #79
  • Support SAM normalization. #86
  • Add docstring. #88

Changed

  • Remove dependency on raynes/fs. #80
  • Improve sorter. #81
  • Namespace refactoring. #83
  • I/O API refactoring. #84
  • Use proton instead of some utilities. #87

Fixed

  • Fix test of BCF writer. #82
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