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ShoRAH 2 (pre-release)
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@DrYak DrYak released this 22 Jul 18:34
· 13 commits to master since this release
v1.99.1
62b3464

This is a pre-release version of ShoRAH 2, which is used by V-pipe in the current sars-cov-2 sequencing efforts, it is also used in doi:10.1101/2020.06.09.142919.

It can be considered suitable for production

  • fixes duplicate counts of very highly abundant haplotypes (was causing posterior > 1.0).
  • fixes crashes due to unhandled exp underflow exceptions.
  • fixes issues with missing .version file (issue #72 and #76)
  • gives an option (-t/--threads) to limit thread count.
  • gives an option (- p/--threshold) to change posterior threshold when calling SNVs.

Caution:

Please do not use the automatically generated tarballs from Github. These do not contain the bootstrapped files required by the build system. You can recognize Github releases by their file suffix (tar.gz). The correct tarball is bzipped (shorah-1.99.1.tar.bz2) or xzipped (shorah-1.99.1.tar.xz).

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