doing PBS(population branch statistics) in ANGSD
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14 months ago
Blessing • 0

Hi everyone; I am trying to do a Population branch statistic on my data. I have done the first step, where I calculate saf; now I need to do the second step calculating 2dsfs, when I submit the script on the cluster.

I need to use this command: ./realSFS pop1.saf.idx pop2.saf.idx > p1.p2.ml

I get this

 -> angsd version: 0.921 (htslib: 1.8-37-gcaed43e) build(Jul  3 2018 11:38:01)

  -> Must choose input file -bam/-glf/-glf3/-pileup/-i/-vcf-gl/-vcf-gp/-vcf-pl/-glf10_text filename

When executing misc/realSFS or misc alone or realSFS alone, the error text says no such file or directory.

How do I go about this?

Your input will be highly valued.

fst pbs ANGSD • 573 views
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When executing misc/realSFS or misc alone or realSFS alone, the error text says no such file or directory

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