the format of groups file

Commands in mothur
1

Hi guys,

I am using mothur for a while. Now one issue really toubles me. I made a mistake in making the groups file in the begining with - , for example, co-1,co-2. It went well for the whole process. However, now I need to get some special groups from the fasta file, it failed due to the wrong format with get.groups. I don`t want to process the data from the first step again.

Any help is greatly appreciated!

Best wishes

Amy

2

You can escape the dashes in the group names or file names. For example:

get.groups(group=testdash.groups, groups=c1-0-c1-2)

would select the groups c1-0 and c1-2.

3

Thanks Westcott for your help.
It works well.

Cheers
Amy