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version 0.3.0
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@gmcvicker gmcvicker released this 03 Jul 21:25
· 107 commits to master since this release
v0.3.0
b83a355

This release moves the codebase from Python2 to Python3 and includes several additional improvements.

Changes include:

  • Switch to Python3 from Python2
  • Switch to PyTables version 3
  • General cleanup of code to conform to PEP8 style
  • Better matching of VCF files to chromosomes in snp2h5 (uses name of chromosome within VCF, rather than relying on filename)
  • add --txt_counts option to bam2h5.py as a simple way to obtain a file with allele-specific counts. The bam2h5.py should now be used instead of the get_as_counts.py script (which double counts reads that overlap multiple SNPs).
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