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v0.19.0

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@MatteoSchiavinato MatteoSchiavinato released this 15 Mar 14:31
· 104 commits to master since this release

Log of changes:

  • Updated g2g module. Now it presents output as BED file, and filters it by minimum length of g2g block.
  • Changed algorithm of the sim module. Now the simulation resembles more a real genome. The genome is broken into haplotypes of variable size sampled from a distribution centered around a mean that the user can pass as a parameter (--mean-haplotype-size). Each haplotype is assigned a divergence rate. The divergence is variable, and like the haplotype size, is sampled from a distribution centered around the one declared in --divergence. Then, based on the fraction of --loh declared by the user, some of these haplotypes are assigned divergence = 0. Then, the algorithm adjusts the divergence rate of the non-LOH haplotypes to bring the total average back to --divergence. Finally, random mutations are introduced in each haplotype based on their assigned divergence rate.
  • Added GPL3.0 licence