pontussk

Hi Thiseas, That is unfortunate that --first does not work. I can have a look at fixing this if you are able to send me any error messages. Best, Pontus...

Hi Alex, Popstats should ignore all triallelic SNPs in your sample. Let me know if you see behaviour different from that. Best, Pontus On Mon, Sep 25, 2017 at 11:44...

Hi, --LD defines that midpoint distance for which D is computed and --LDwindow defines a range around that midpoint. You can change the unit using the --morgan option. In our...

Hi! Thanks for using popstats. You need to change how you specify the input files. Could you try python2 popstats.py --tped good.tped --tfam good.tfam --not23 --pops pop1,pop2,pop3,pop4 --informative ?

Hi, Your tfam file should have e.g. "pop1" or "pop2" and not just "pop" in the first column. If changing this doesn't work, would it be possible for you to...

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Great, thanks for your interest in popstats!

Hi, Are all your chromosome names 0? Try changing them to 1 or >1. Also, depending on your genome size you might need to change the default block size of...

Hi, This error message suggests that you don't have the same number of individuals in your tped and tfam files. Perhaps try running them through plink to make sure they...

Hi, Can you please send me both your files or upload them somewhere? Best, Pontus On Wed, Jul 12, 2017 at 5:40 PM, alx552 wrote: > I think I have...