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v0.15.0

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@MatteoSchiavinato MatteoSchiavinato released this 16 Mar 12:56
· 197 commits to master since this release

Log of changes:

  • jloh g2g now creates two separate BED files with regions, one per parental subgenome. This fixes an issue arising when they have chromosomes with the same names.
  • The same is done for jloh extract as well, now. Streams of LOH blocks are now left separate so that when same chromosome names are there in the two parents, they don't get confused.
  • In jloh extract, the "candidates" file is tsv now, not bed.
  • Fixed an issue in jloh extract and jloh g2g when removing the temporary folder.
  • Change jloh sim script entirely to make the code more readable. Now works with parallel threads too.
  • g2g now has a --sensitive and a --relaxed mapping parameter, that defines how nucmer matches are found.