trouble in SNP calling using ANGSD
Hello there,I called snp using the newest software angsd, and unlike the traditional software like samtools and GATK which can output the vcf format, this software seems not having valid output format to facilitate subsequent plink analysis. Is there any similar experience in this respect, please give me some advice, thanks!
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andersdetermig •
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Jay Chou •
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written
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Jay Chou •
1 answer
try the
-doPlink 2
option to generate plink input files (tped/tfam)
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andersdetermig •
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