I've got a probably obvious question that I can't find an answer to after some digging. When I calculate the genotype posterior probabilities with ANGSD and feed them into ngsCovar, I get a matrix of numbers where the number of columns and rows equals the number of samples. Am I right to assume that column/row #1 corresponds to the first bam file in the list of bam files that I input into ANGSD, column/row #2 corresponds to the second bam file, etc...?
Greetings,
I've got a probably obvious question that I can't find an answer to after some digging. When I calculate the genotype posterior probabilities with ANGSD and feed them into ngsCovar, I get a matrix of numbers where the number of columns and rows equals the number of samples. Am I right to assume that column/row #1 corresponds to the first bam file in the list of bam files that I input into ANGSD, column/row #2 corresponds to the second bam file, etc...?
Thanks so much, Evan