mothur_toolsuite: mothur/suite

annotate mothur/suite_config.xml @ 1:c7923b34dea4

Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository

author	jjohnson
date	Tue, 07 Jun 2011 17:01:07 -0400
parents	591e72edabed
children	e076d95dbdb5

rev	line source
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	1 <suite id="Mothur_toolsuite" name="Mothur Metagenomics" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	2 <description>Mothur metagenomics commands as Galaxy tools</description>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	3 <tool id="mothur_align_check" name="Align.check" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	4 <description>Calculate the number of potentially misaligned bases</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	5 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	6 <tool id="mothur_align_seqs" name="Align.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	7 <description>Align sequences to a template alignment</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	8 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	9 <tool id="mothur_bin_seqs" name="Bin.seqs" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	10 <description>Order Sequences by OTU</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	11 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	12 <tool id="mothur_bootstrap_shared" name="Bootstrap.shared" version="1.16.0" force_history_refresh="True">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	13 <description>Generate a newick trees for dissimilarity among groups</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	14 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	15 <tool id="mothur_chimera_bellerophon" name="Chimera.bellerophon" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	16 <description>Find putative chimeras using bellerophon</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	17 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	18 <tool id="mothur_chimera_ccode" name="Chimera.ccode" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	19 <description>Find putative chimeras using ccode</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	20 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	21 <tool id="mothur_chimera_check" name="Chimera.check" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	22 <description>Find putative chimeras using chimeraCheck</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	23 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	24 <tool id="mothur_chimera_pintail" name="Chimera.pintail" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	25 <description>Find putative chimeras using pintail</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	26 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	27 <tool id="mothur_chimera_slayer" name="Chimera.slayer" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	28 <description>Find putative chimeras using slayer</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	29 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	30 <tool id="mothur_chop_seqs" name="Chop.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	31 <description>Trim sequences to a specified length</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	32 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	33 <tool id="mothur_classify_otu" name="Classify.otu" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	34 <description>Assign sequences to taxonomy</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	35 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	36 <tool id="mothur_classify_seqs" name="Classify.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	37 <description>Assign sequences to taxonomy</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	38 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	39 <tool id="mothur_clearcut" name="Clearcut" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	40 <description>Generate a tree using relaxed neighbor joining</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	41 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	42 <tool id="mothur_cluster_classic" name="Cluster.classic" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	43 <description>Assign sequences to OTUs (Dotur implementation)</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	44 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	45 <tool id="mothur_cluster_fragments" name="Cluster.fragments" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	46 <description> Group sequences that are part of a larger sequence</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	47 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	48 <tool id="mothur_cluster_split" name="Cluster.split" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	49 <description>Assign sequences to OTUs (Operational Taxonomic Unit) splits large matrices</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	50 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	51 <tool id="mothur_cluster" name="Cluster" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	52 <description>Assign sequences to OTUs (Operational Taxonomic Unit)</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	53 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	54 <tool id="mothur_collect_shared" name="Collect.shared" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	55 <description>Generate collector's curves for calculators on OTUs</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	56 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	57 <tool id="mothur_collect_single" name="Collect.single" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	58 <description>Summary of calculator values for OTUs</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	59 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	60 <tool id="mothur_consensus_seqs" name="Consensus.seqs" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	61 <description>Find a consensus sequence for each OTU or phylotype</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	62 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	63 <tool id="mothur_corr_axes" name="Corr.axes" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	64 <description>correlation of data to axes</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	65 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	66 <tool id="mothur_degap_seqs" name="Degap.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	67 <description>Remove gap characters from sequences</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	68 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	69 <tool id="mothur_deunique_seqs" name="Deunique.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	70 <description>Return all sequences</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	71 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	72 <tool id="mothur_dist_seqs" name="Dist.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	73 <description>calculate uncorrected pairwise distances between aligned sequences</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	74 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	75 <tool id="mothur_dist_shared" name="Dist.shared" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	76 <description>Generate a phylip-formatted dissimilarity distance matrix among multiple groups</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	77 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	78 <tool id="mothur_fastq_info" name="Fastq.info" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	79 <description>Convert fastq to fasta and quality</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	80 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	81 <tool id="mothur_filter_seqs" name="Filter.seqs" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	82 <description>removes columns from alignments</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	83 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	84 <tool id="mothur_get_groups" name="Get.groups" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	85 <description>Select groups</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	86 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	87 <tool id="mothur_get_group" name="Get.group" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	88 <description>group names from shared or from list and group</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	89 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	90 <tool id="mothur_get_lineage" name="Get.lineage" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	91 <description>Picks by taxon</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	92 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	93 <tool id="mothur_get_oturep" name="Get.oturep" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	94 <description>Generate a fasta with a representative sequence for each OTU</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	95 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	96 <tool id="mothur_get_otus" name="Get.otus" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	97 <description>Get otus containing sequences from specified groups</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	98 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	99 <tool id="mothur_get_relabund" name="Get.relabund" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	100 <description>Calculate the relative abundance of each otu</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	101 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	102 <tool id="mothur_get_seqs" name="Get.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	103 <description>Picks sequences by name</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	104 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	105 <tool id="mothur_hcluster" name="Hcluster" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	106 <description>Assign sequences to OTUs (Operational Taxonomic Unit)</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	107 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	108 <tool id="mothur_heatmap_bin" name="Heatmap.bin" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	109 <description>Generate a heatmap for OTUs</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	110 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	111 <tool id="mothur_heatmap_sim" name="Heatmap.sim" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	112 <description>Generate a heatmap for pariwise similarity</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	113 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	114 <tool id="mothur_indicator" name="Indicator" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	115 <description>Identify indicator "species" for nodes on a tree</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	116 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	117 <tool id="mothur_libshuff" name="Libshuff" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	118 <description>Cramer-von Mises tests communities for the same structure</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	119 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	120 <tool id="mothur_list_seqs" name="List.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	121 <description>Lists the names of the sequences</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	122 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	123 <tool id="mothur_make_design" name="Make Design" version="1.16.0" >
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	124 <description>Assign groups to Sets</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	125 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	126 <tool id="mothur_make_files" name="Make.group" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	127 <description>Make a group file</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	128 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	129 <tool id="mothur_merge_files" name="Merge.files" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	130 <description>Merge data</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	131 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	132 <tool id="mothur_merge_groups" name="Merge.groups" version="1.16.0" >
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	133 <description>Merge groups in a shared file</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	134 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	135 <tool id="mothur_metastats" name="Metastats" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	136 <description>generate principle components plot data</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	137 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	138 <tool id="mothur_nmds" name="Nmds" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	139 <description>generate non-metric multidimensional scaling data</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	140 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	141 <tool id="mothur_normalize_shared" name="Normalize.shared" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	142 <description>Normalize the number of sequences per group to a specified level</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	143 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	144 <tool id="mothur_pairwise_seqs" name="Pairwise.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	145 <description>calculate uncorrected pairwise distances between sequences</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	146 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	147 <tool id="mothur_parse_list" name="Parse.list" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	148 <description>Order Sequences by OTU</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	149 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	150 <tool id="mothur_parsimony" name="Parsimony" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	151 <description>Describes whether two or more communities have the same structure</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	152 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	153 <tool id="mothur_pca" name="Pca" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	154 <description>generate principle components plot data</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	155 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	156 <tool id="mothur_pcoa" name="Pcoa" version="1.16.0" >
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	157 <description>Principal Coordinate Analysis</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	158 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	159 <tool id="mothur_phylo_diversity" name="Phylo.diversity" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	160 <description>Alpha Diversity calculate unique branch length</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	161 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	162 <tool id="mothur_phylotype" name="Phylotype" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	163 <description>Assign sequences to OTUs based on taxonomy</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	164 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	165 <tool id="mothur_pre_cluster" name="Pre.cluster" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	166 <description>Remove sequences due to pyrosequencing errors</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	167 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	168 <tool id="mothur_rarefaction_shared" name="Rarefaction.shared" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	169 <description>Generate inter-sample rarefaction curves for OTUs</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	170 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	171 <tool id="mothur_rarefaction_single" name="Rarefaction.single" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	172 <description>Generate intra-sample rarefaction curves for OTUs</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	173 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	174 <tool id="mothur_read_otu" name="Read.otu" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	175 <description>Read OTU list and group to create a shared file</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	176 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	177 <tool id="mothur_remove_groups" name="Remove.groups" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	178 <description>Remove groups</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	179 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	180 <tool id="mothur_remove_lineage" name="Remove.lineage" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	181 <description>Picks by taxon</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	182 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	183 <tool id="mothur_remove_otus" name="Remove.otus" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	184 <description>Remove otus containing sequences from specified groups</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	185 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	186 <tool id="mothur_remove_rare" name="Remove.rare" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	187 <description>Remove rare OTUs</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	188 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	189 <tool id="mothur_remove_seqs" name="Remove.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	190 <description>Remove sequences by name</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	191 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	192 <tool id="mothur_reverse_seqs" name="Reverse.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	193 <description>Reverse complement the sequences</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	194 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	195 <tool id="mothur_screen_seqs" name="Screen.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	196 <description>Screen sequences</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	197 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	198 <tool id="mothur_sffinfo" name="Sffinfo" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	199 <description>Summarize the quality of sequences</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	200 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	201 <tool id="mothur_split_abund" name="Split.abund" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	202 <description>Separate sequences into rare and abundant groups</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	203 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	204 <tool id="mothur_split_groups" name="Split.groups" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	205 <description>Generates a fasta file for each group</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	206 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	207 <tool id="mothur_sub_sample" name="Sub.sample" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	208 <description>Create a sub sample</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	209 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	210 <tool id="mothur_summary_seqs" name="Summary.seqs" version="1.16.0">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	211 <description>Summarize the quality of sequences</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	212 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	213 <tool id="mothur_summary_shared" name="Summary.shared" version="1.16.0" force_history_refresh="True">
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	214 <description>Summary of calculator values for OTUs</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	215 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	216 <tool id="mothur_summary_single" name="Summary.single" version="1.16.0" force_history_refresh="True">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	217 <description>Summary of calculator values for OTUs</description>
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	218 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	219 <tool id="mothur_tree_shared" name="Tree.shared" version="1.16.0" force_history_refresh="True">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	220 <description>Generate a newick tree for dissimilarity among groups</description>
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	221 </tool>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	222 <tool id="tree_vector" name="TreeVector" version="1.0">
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	223 <description>Draw a Phylogenic Tree</description>
591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	224 </tool>
1 c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	225 <tool id="mothur_trim_seqs" name="Trim.seqs" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	226 <description>Trim sequences - primers, barcodes, quality</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	227 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	228 <tool id="mothur_unifrac_unweighted" name="unifrac.unweighted" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	229 <description>Describes whether two or more communities have the same structure</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	230 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	231 <tool id="mothur_unifrac_weighted" name="unifrac.weighted" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	232 <description>Describes whether two or more communities have the same structure</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	233 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	234 <tool id="mothur_unique_seqs" name="Unique.seqs" version="1.16.0">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	235 <description>Return unique sequences</description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	236 </tool>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	237 <tool id="mothur_venn" name="Venn" version="1.16.0" force_history_refresh="True">
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	238 <description>Generate Venn diagrams gor groups </description>
c7923b34dea4 Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository jjohnson parents: 0 diff changeset	239 </tool>
0 591e72edabed Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository jjohnson parents: diff changeset	240 </suite>

Mercurial > repos > jjohnson > mothur_toolsuite

annotate mothur/suite_config.xml @ 1:c7923b34dea4