Mapping removed sequences back to sample after screen.seqs

Commands in mothur
1

I am currently trying to determine the proportion of sequences per sample that were removed from my dataset after the screen.seqs command.

Anyone know how to accomplish this!

Thanks!

2

You can use the count.groups command, http://www.mothur.org/wiki/Count.groups to find the number of sequence in each sample before and after the screening. The *.count.summary file is a 2 column tab delimited file that could be easily opened in excel and used to find the percentage of sequences removed in each sample.

3

Thanks for the reply!!!