diff cluster.tools/order.by.cl.xml @ 2:b442996b66ae draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/cluster.tools/order.by.cl.xml	Wed Feb 27 20:17:04 2013 -0500
@@ -0,0 +1,33 @@
+<tool id="order_by_clustering" name="Re-order Data Matrix by Cluster Analysis" force_history_refresh="True">
+    <command interpreter="python">order.by.cl.py
+-d $dataset 
+-c ${class_select}
+${genes_only}
+${within_cl_srt}
+-o ${output}
+
+</command>
+    <inputs>
+    	<param name="dataset" type="data" format="tabular" label="Matrix"/>
+    	<param name="class_select" type="data" format="rdata" label="Cluster result (rdata file)"/>
+	<param name="genes_only" type="boolean" label="Genes Only?" truevalue="-g" falsevalue="" checked="False"/>
+	<param name="within_cl_srt" type="boolean" label="Sort within-cluster members?" truevalue="-w" falsevalue="" checked="True"/>
+    </inputs>
+    <outputs>
+        <data format="tabular" name="output" label="Matrix Re-ordered by clusters"/>
+    </outputs>
+<help>
+.. class:: infomark
+     
+**Re-order Data Matrix by Cluster Analysis** - Tool to convert a data matrix into a simplified CDT format that can be read by TreeView
+
+**OUTPUT:**  A new Matrix, ordered by cluster membership
+
+----
+
+**Parameters**
+
+- **Matrix in tab-delimited format** Tab-delimited file
+
+</help>
+</tool>