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Update gerp_derived_alleles.py to work with phased genotypes #67

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verku opened this issue Jan 15, 2024 · 0 comments
Open

Update gerp_derived_alleles.py to work with phased genotypes #67

verku opened this issue Jan 15, 2024 · 0 comments
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enhancement New feature or request

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verku commented Jan 15, 2024 •
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From a user contacting us:

I was getting an error and noticed that it crashes when there are genotypes in the vcf file that are phased (0|0 instead of 0/0). So I just modified line 138 to :

focal_genotype = re.split(r"/||", row[samplename])

and imported re at the beginning of the script:

import re
@verku verku added the enhancement New feature or request label Jan 15, 2024
@verku verku self-assigned this Jan 15, 2024
@verku verku added the next version Include this issue into the next pipeline version label Jan 29, 2024
@verku verku removed the next version Include this issue into the next pipeline version label Oct 10, 2024
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