view mothur/tool-data/mothur_aligndb.loc @ 7:7bfe1f843858

Support Mothur v1.20 trim.seqs - added name parameter and optional trim.names output phylo.diversity - group optional, put group and groups in conditional - breaks get.lineage remove.lineage - allow multiple taxons dist.shared - added processors consensus.seqs - add cutoff parameter trim.seqs,phylo.diversity,get.lineage,remove.lineage,dist.shared,consensus.seqs new tools - chimera.uchime deunique.tree count.seqs shared/relabund files - Column headings refactor lib/galaxy/datatypes/metagenomics.py add filters to label and group selects in tool configs mothur_wrapper.py updated with new tools params

#This is a sample file distributed with Galaxy that enables tools
#to use a directory of metagenomics files.  
#file has this format (white space characters are TAB characters):
#
#<dbname>	<file_base>
#
greengenes	/project/db/galaxy/mothur/core_set_aligned.imputed.fasta
silva archaea	/project/db/galaxy/mothur/Silva.archaea/silva.archaea.fasta
silva bacteria	/project/db/galaxy/mothur/silva.bacteria/silva.bacteria.fasta
silva eukarya	/project/db/galaxy/mothur/silva.eukarya.fasta
silva archaea nogap	/project/db/galaxy/mothur/Silva.archaea/nogap.archaea.fasta
silva bacteria nogap	/project/db/galaxy/mothur/silva.bacteria/nogap.bacteria.fasta
silva eukarya nogap	/project/db/galaxy/mothur/nogap.eukarya.fasta