From f0bfe3a7e12ea06df6d229775d3f078ceb57d771 Mon Sep 17 00:00:00 2001 From: "cmzmasek@gmail.com" Date: Fri, 29 Jun 2012 19:33:14 +0000 Subject: [PATCH] Edited wiki page GSDI through web user interface. --- wiki/GSDI.wiki | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/wiki/GSDI.wiki b/wiki/GSDI.wiki index 0801de9..4d83100 100644 --- a/wiki/GSDI.wiki +++ b/wiki/GSDI.wiki @@ -29,8 +29,8 @@ Must be in phyloXML format unless option -q is used. === Output === Besides the main output of a gene tree with duplications and speciations assigned to all of its internal nodes, this program also produces the following: - * a log file, ending in `_gsdi_log.txt` - * a species tree file which only contains external nodes with were needed for the reconciliation, ending in '_species_tree_used.xml' + * a log file, ending in `"_gsdi_log.txt"` + * a species tree file which only contains external nodes with were needed for the reconciliation, ending in `_species_tree_used.xml` * if the gene tree contains species with scientific species names such as "Pyrococcus horikoshii strain ATCC 700860" and if a mapping cannot be establish bases on these, GSDI will attempt to map by removing the "strain" (or "subspecies") information, these will be listed in a file ending in '_gsdi_remapped.txt'. === Example === -- 1.7.10.2