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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/qiime/ commit 34eaca6eb9d3421c5825a04583779154c30bb324 |
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modified:
summarize_taxa.xml |
| b |
| diff -r 50df54a9ae82 -r ed9f71643ebc summarize_taxa.xml --- a/summarize_taxa.xml Sat Aug 05 07:19:08 2017 -0400 +++ b/summarize_taxa.xml Sat Aug 05 07:59:24 2017 -0400 |
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| @@ -1,5 +1,5 @@ <tool id="qiime_summarize_taxa" name="Summarize taxa" version="@WRAPPER_VERSION@.0"> - <description> and store results in a new table or appended to an existing mapping file (summarize_taxa)</description> + <description>and store results in a new table or appended to an existing mapping file (summarize_taxa)</description> <macros> <import>macros.xml</import> </macros> @@ -41,8 +41,8 @@ <param argument="--md_identifier" type="text" value="taxonomy" label="Relevant observation metadata key"/> <param argument="--md_as_string" type="boolean" truevalue="--md_as_string" falsevalue="" checked="false" label="Include metadata as string?" help="By default, metadata is included as list"/> <param argument="--absolute_abundance" type="boolean" truevalue="--absolute_abundance" falsevalue="" checked="false" label="Report absolute abundance?" help="By default, relative abundance is reported"/> - <param argument="lower_percentage" type="float" optional="true" label="Percentage threshold to remove highly present OTU" help="If present, OTUs having higher absolute abundance are trimmed. To remove OTUs that make up more than 5% of the total dataset you would pass 0.05"/> - <param argument="--upper_percentage" type="float" label="Percentage threshold to remove lowly present OTU" help="If present, OTUs having lower absolute abundance are trimmed. To remove the OTUs that makes up less than 45% of the total dataset you would pass 0.45"/> + <param argument="--lower_percentage" type="float" value="" optional="true" label="Percentage threshold to remove highly present OTU" help="If present, OTUs having higher absolute abundance are trimmed. To remove OTUs that make up more than 5% of the total dataset you would pass 0.05"/> + <param argument="--upper_percentage" type="float" value="" label="Percentage threshold to remove lowly present OTU" help="If present, OTUs having lower absolute abundance are trimmed. To remove the OTUs that makes up less than 45% of the total dataset you would pass 0.45"/> <param argument="--transposed_output" type="boolean" truevalue="--transposed_output" falsevalue="" checked="false" label="Transpose output?" help="If checked, the output will be written transposed from the regular output. This is helpful in cases when you want to use Site Painter to visualize your data"/> <param argument="--suppress_classic_table_output" type="boolean" truevalue="--suppress_classic_table_output" falsevalue="" checked="false" label="Suppress creation of the classic (TSV) format taxon table?" help="This option is ignored if a mapping file is present"/> <param argument="--suppress_biom_table_output" type="boolean" truevalue="--suppress_biom_table_output" falsevalue="" checked="false" label="Suppress creation of the BIOM-formatted taxon table?" help="This option is ignored if a mapping file is present"/> |