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calico / baskerville

Machine learning methods for DNA sequence analysis.
Apache License 2.0
32 stars 9 forks source link

Stitch pos #35

Closed davek44 closed 5 months ago

davek44 commented 5 months ago

Description of your changes

Allow stitching from arbitrary indel positions, which occurs in both hound_snp.py w/ SNP clustering -c > 0 and hound_snpgene.py

(If applicable) How has this been tested?

eQTL classification and effect size correlation improve for hound_snp.py w/ clustering. hound_snpgene.py effect size correlation is tied w/ and w/o stitching.

lruizcalico commented 5 months ago

@davek44 I updated the version of pybedtools. That what failed the pytest before and now it works.