diff qiime2/qiime_feature-table_core-features.xml @ 0:370e0b6e9826 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/qiime2/qiime_feature-table_core-features.xml	Wed Jul 17 03:05:17 2019 -0400
@@ -0,0 +1,69 @@
+<?xml version="1.0" ?>
+<tool id="qiime_feature-table_core-features" name="qiime feature-table core-features" version="2019.4">
+	<description> - Identify core features in table</description>
+	<requirements>
+		<requirement type="package" version="2019.4">qiime2</requirement>
+	</requirements>
+	<command><![CDATA[
+qiime feature-table core-features
+
+--i-table=$itable
+
+#if $pminfraction:
+ --p-min-fraction=$pminfraction
+#end if
+
+#if $pmaxfraction:
+ --p-max-fraction=$pmaxfraction
+#end if
+
+#if $psteps:
+ --p-steps=$psteps
+#end if
+
+--o-visualization=ovisualization
+;
+qiime tools export --input-path ovisualization.qzv --output-path out   && mkdir -p '$ovisualization.files_path'
+&& cp -r out/* '$ovisualization.files_path'
+&& mv '$ovisualization.files_path/index.html' '$ovisualization';
+	]]></command>
+	<inputs>
+		<param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to use in core features calculations.                                [required]" name="itable" optional="False" type="data"/>
+		<param label="--p-min-fraction: PROPORTION Range(0.0, 1.0, inclusive_start=False) The minimum fraction of samples that a feature must be observed in for that feature to be considered a core feature.                                 [default: 0.5]" name="pminfraction" optional="True" type="float" value="0.5"/>
+		<param label="--p-max-fraction: PROPORTION Range(0.0, 1.0, inclusive_end=True) The maximum fraction of samples that a feature must be observed in for that feature to be considered a core feature.                                 [default: 1.0]" name="pmaxfraction" optional="True" type="float" value="1.0"/>
+		<param label="--p-steps: INTEGER    The number of steps to take between `min-fraction` and Range(2, None)     `max-fraction` for core features calculations. This parameter has no effect if `min-fraction` and `max-fraction` are the same value.        [default: 11]" name="psteps" optional="True" type="integer" value="11"/>
+	</inputs>
+	<outputs>
+		<data format="html" label="${tool.name} on ${on_string}: visualization.qzv" name="ovisualization"/>
+	</outputs>
+	<help><![CDATA[
+Train an almost arbitrary scikit-learn classifier
+#################################################
+
+Train a scikit-learn classifier to classify reads.
+
+Parameters
+----------
+reference_reads : FeatureData[Sequence]
+	\
+
+reference_taxonomy : FeatureData[Taxonomy]
+	\
+
+classifier_specification : Str
+	\
+
+class_weight : FeatureTable[RelativeFrequency], optional
+	\
+
+Returns
+-------
+classifier : TaxonomicClassifier
+	\
+
+	]]></help>
+<macros>
+    <import>qiime_citation.xml</import>
+</macros>
+<expand macro="qiime_citation"/>
+</tool>