diff population_structure.xml @ 0:580da578c5e6 default tip

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/population_structure.xml	Thu Apr 05 15:56:36 2012 -0400
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+<tool id="gd_population_structure" name="Population" version="1.0.0">
+  <description>structure</description>
+
+  <command interpreter="python">
+    population_structure.py "$input" "${input.extra_files_path}/admix.ped" "$output" "$output.extra_files_path" "$populations"
+  </command>
+
+  <inputs>
+    <param name="input" type="data" format="wped" label="Dataset" />
+    <param name="populations" type="integer" min="1" value="2" label="Number of populations" />
+  </inputs>
+
+  <outputs>
+    <data name="output" format="html" />
+  </outputs>
+
+  <help>
+**What it does**
+
+The users selects a set of data generated by the Galaxy tool to "prepare
+to look for population structure", and specifies a number, K, of ancestral
+populations.  The tool estimates the proportion of each individual's ancestry
+coming from each ancestral population.  The proportions are shown both as
+numbers and graphically.
+
+**Acknowledgments**
+
+We use the program "Admixture", downloaded from
+
+http://www.genetics.ucla.edu/software/admixture/
+
+and described in the paper "Fast model-based estimation of ancestry in
+unrelated individuals" by David H. Alexander, John Novembre and Kenneth Lange,
+Genome Research 19 (2009), pp. 1655-1664.
+  </help>
+</tool>