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ksamuk / pixy

Software for painlessly estimating average nucleotide diversity within and between populations
https://pixy.readthedocs.io/
MIT License
115 stars 14 forks source link

issues about multiple alleles and phasing sites #102

Open zy66-su opened 4 months ago

zy66-su commented 4 months ago

Hello, thank you for developing such a great software. I noticed two issues during my use of the manual: 1. GATK4 also generates multiple alleles, which can interfere with calculations ?

  1. In the results generated by GATK4, there are both 0/1 and 0|1. Will the loci of this 0|1 haplotype typing interfere with the results ?