Hello everyone,
I’m trying to do the MiSeq SOP as part of my bioinformatics course. I’m able to get through the first couple steps fine, but where the instructions say to use a file ending in “count_table” I had to use the stability.contigs.groups file. This led to the next issue, where we’re supposed to trim down the data sets. So, I entered this line of code:
mothur > screen.seqs(fasta=stability.trim.contigs.fasta, count=stability.contigs.groups, maxambig=0, maxlength=275, maxhomop=8)
This returned an error saying there were multiple files with the same name, as well as some saying that files had a total of 0. Attached is a screenshot of the error. Can someone help me figure out how to fix this?