Mercurial > repos > jjohnson > mothur_toolsuite
view mothur/tool-data/mothur_taxonomy.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
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Mon, 27 Jun 2011 10:12:25 -0500 |
| parents | 3202a38e44d9 |
| children |
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#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): # #<taxonomyname> <file_base> # archaea.gg /project/db/galaxy/mothur/Silva.archaea/silva.archaea.gg.tax archaea.silva /project/db/galaxy/mothur/Silva.archaea/silva.archaea.silva.tax archaea.rdp /project/db/galaxy/mothur/Silva.archaea/silva.archaea.rdp.tax archaea.ncbi /project/db/galaxy/mothur/Silva.archaea/silva.archaea.ncbi.tax bacteria.gg /project/db/galaxy/mothur/silva.bacteria/silva.bacteria.gg.tax bacteria.silva /project/db/galaxy/mothur/silva.bacteria/silva.bacteria.silva.tax bacteria.ncbi /project/db/galaxy/mothur/silva.bacteria/silva.bacteria.ncbi.tax bacteria.rdp /project/db/galaxy/mothur/silva.bacteria/silva.bacteria.rdp.tax bacteria.rdp6 /project/db/galaxy/mothur/silva.bacteria/silva.bacteria.rdp6.tax eukarya.silva /project/db/galaxy/mothur/silva.eukarya.silva.tax eukarya.ncbi /project/db/galaxy/mothur/silva.eukarya.ncbi.tax