From: cmzmasek@gmail.com <cmzmasek@gmail.com@ca865154-3058-d1c3-3e42-d8f55a55bdbd>
Date: Fri, 8 Jun 2012 14:24:24 +0000 (+0000)
Subject: Created wiki page through web user interface.
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=c5ab23290f8f52cf0f3446283297ce2e087cd902;p=jalview.git

Created wiki page through web user interface.
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diff --git a/wiki/GSDI.wiki b/wiki/GSDI.wiki
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+#summary preprocessing of gene trees for speciation/duplication inference
+
+= Generalized Speciation Duplication Inference
+
+== Purpose ==
+
+Infer duplication events on a gene tree given a trusted species tree.
+
+== Usage == 
+{{{
+java -Xmx1024m -cp
+path/to/forester.jar org.forester.application.gene_tree_preprocess <input tree in NH, NHX, Nexus, or phyloXML>
+}}}
+
+
+
+== Details ==
+
+Output consists of three files:
+  * input-name_preprocessed_gene_tree.phylo.xml
+  * input-name_species_present.txt
+  * input-name_removed_nodes.txt
+
+
+== Download ==
+
+Download forester.jar here: http://code.google.com/p/forester/downloads/list
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