acf2treemix no output

Question

acf2treemix no output

zyxplus opened this issue 5 years ago · 3 comments

it shows: Program acf2treemix wrote 0 out of 5733 terminated gracefully
I used
glactools bplink2acf --fai refer.fai plink_prefix | glactools acf2treemix - | gzip >plink_prefix.gz

does the input data need to be extra modification?
By the way, how many sites are needed to run treemix at least? I found out that not many sno left after using 'geno 0' in plink? Afraid to use this tool in the wrong way?

Answer 1 · 2019-04-12T12:22:53.000Z

I think this is very likely due to the fact that your root is undefined, I can add an option to forego the root but is this what you want?

Answer 2 · 2019-04-12T12:25:39.000Z

I have added a warning now. I could add an option to simply dump the populations without the root but do people actually do this?

Answer 3 · 2020-04-09T09:33:29.000Z

Is this fine? Can I close the issue?