pixy
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ksamuk
Software for painlessly estimating average nucleotide diversity within and between populations
Hello. I'm running pixy with two populations, "case", and "control". Sometimes I have only one control sample, so I'm confused about how to interpret the pi output for this single...
Hi could I ask if pixy can be used in the haploid species? Thanks Best Shuangyang
**Describe the problem you are having** Hi there, I am working with a set of genes from two populations, alignments of which are in fasta format. This fasta alignment was...
Re: #62, we should print a more helpful message when the .tbi file is input in place of the .vcf.gz. Currently results in a cryptic pandas error.
Hi Kieran, Following on from this issue #51, is there a chance you could add the variance components (summed per window) to the fst outputs so users can calculate the...
Dear all, Could permutation test be included in this software? It will be helpful when defining a thresold. Thank you very much. Best regards, Zheng zhuqing
Hi Kieran, Inspired by [this previous feature request for Hudson's FST](https://github.com/ksamuk/pixy/issues/30), I'd love to see Tajima's D implemented in Pixy so I can do all my summary stat calculations with...
**Is your feature request related to a problem? Please describe.** A clear and concise description of what the problem is. Ex. I'm always frustrated when [...] **Describe the solution you'd...
I have an allsites vcf, containing invariant and variant sites, that I have properly filtered (e.g., missing data, depth). Since I used vcftools at a certain stage _[to update, I...
Hi, I know we need a hard filter to variant and invariant data, respectively, which means we may lose sites within each sliding window, for example, for 50k window size,...
