Hello all,
First I should say that I am entirely new to this whole program and wading through uncharted waters for our lab. I am following 454 analysis example from the main website to test our data. I am running into a problem when it requires a group file. I am sorry if this is a fairly easy fix, but again, I am entirely new to all of this.
When I started the analysis, mothur would crash when trying to run the shhh.flows command. So I opted to take the trim.seqs approach as it says to. I do not have an oligos file (at least that I am aware of) from the lab that did our sequencing. It seems that because I neglected to enter an oligos file, I did not get a group file from the output? I tried to get this file in an output several times, but never was able to. It didn’t seem to make a difference until I got to the OTU analysis part of the tutorial, making the cluster and shared file.
Is there any suggestions on how to get around this in order to continue the investigation? Is there another name or form for the oligos file that I am just not aware of? I am very appreciative of any advice.
Thanks!