pixy

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Invariant sites not included in no_sites

3

Hello, I am trying to use pixy on data generated using a reduced representation RAD protocol. I assembled loci using the Stacks program (Catchen et al. 2013) and generated a...

gfwalker

Should sites with no depth coverage by included or excluded from VCF files while using Whole genome data for Dxy calculation?

1

Morning, I have a general question related to the formatting of the input VCF file for dxy and pi calculation using Pixy. I generated VCF files from whole genome data...

vincianem

Code crashes when chromosome ID's are digit-only

1

When running pixy on datasets where chomosome IDs consists only of digits, and starting with zeros (e.g. ["0001", [...], "0016"]), the program will break when reading from the temp files,...

jmoellmann

Questions About Fst, Dxy, and Genome-wide π Calculations

1

Hello everyone, I’ve encountered some issues while using the software. They might seem simple, but I’m unable to resolve them on my own, so I would greatly appreciate your help....

xxxicyixxx

Issues with Chromosome Specification in VCF File using --chromosomes

1

I encountered some issues while using the --chromosomes option with my VCF file. 1. Despite the fact that the chromosomes are indeed present in the VCF file, I received an...

xxxicyixxx