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News: Samtools/htslib v1.2 released

A new version of samtools, as well as htslib and bcftools is out. According to the release notes, notable changes are:

  • flagstat now works on SAM, BAM, or CRAM files (rather than BAM only)
  • stats calculates mismatches per cycle for unclipped length
  • merge can now merge SAM input files
  • CRAM reference files are now cached by default (see HTSlib release notes and samtools(1) man page)
  • Tested against Intel-optimised zlib (https://github.com/jtkukunas/zlib; see README for details)
  • Fixed bugs #302, #309, #318, and #327 and many other improvements and bugs fixed in HTSlib - see the HTSlib release notes

Edit: In the off chance that others are using htslib, you can find the release notes for it here.

htslib samtools bcftools
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updated by Ram Ram • written by Devon Ryan Devon Ryan

I would love if people that release tools would drop notes like this. Otherwise it is way too difficult to keep track of what version is each tool at.

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written by Istvan Albert Istvan Albert

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