I have completed the analysis of miseq data using mother (cheer). I have my subsampled file giving me reads per OTU:
How do I turn the OTUs used in this file in to taxonomic labels (yes I am a taxonomy addict).
Thanks for any help much appreciated.
You would have to subsample the list file. You could do the following:
sub.sample(list=sampleX.trim.contigs.good.unique.good.filter.unique.precluster.pick.pds.wang.pick.tx.list, name=yourNameFile, taxonomy=yourTaxonomyFile, name=yourNameFile, group=yourGroupFile, persample=yourChoice) - subsample all files
make.shared(list=current, group=current) - created shared file from subsampled files
classify.otu(list=current, taxonomy=current, name=current, group=current) - classify subsampled otus