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Clinical-Genomics / genotype

Simple genotype comparison of VCF files
http://taboo.readthedocs.org/en/latest/
MIT License
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handle alleles separated by '|' in MIP7 #29

Closed patrikgrenfeldt closed 5 years ago

patrikgrenfeldt commented 5 years ago

This PR fixes the problem that bases to consider sometimes are delimited with '/' and sometimes with '|'

How to test:

  1. install on stage
  2. us
  3. cg upload genotypes vitalmouse (analysed with MIP7)

Expected outcome: genotypes loaded without errors

This PR is a patch since it only starts to handle another delimiter that was already defined in the standard

patrikgrenfeldt commented 5 years ago

Test result: 

cg upload genotypes vitalmouse
----------------- UPLOAD ----------------------
----------------- GENOTYPES -------------------
loaded VCF genotypes for sample: A------
loaded VCF genotypes for sample: A------
loaded VCF genotypes for sample: A------