Depends on the version, plink 1.9 is a tad different
• 1 views
•
link
written
by
andrew.j.skelton73
Can someone give me explanation about the output of plink
I use following command to get 012 matrix
plink --vcf test.vcf.gz --remove ID_of_miss_indv_for_plink --recode A --out TEST
And then I get TEST.raw file. But I do not understand the meaning of column names for example
rs62224609_C rs201290950_AAAACAAAC ._AACAAACAG ._AACAG ._ACAAG ._CAAAA ._ACAAG rs80167676_T ._C
Can someone give me explanation ?
1 answer
Log in to answer this question.
More posts like this
If I remember correctly, the column name means is in the form of RSID_referenceAllele some of your SNP doesn't have the RSID so you got a . instead