X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=wiki%2FGSDI.wiki;h=ac4db98a08c33c77f229a54db9d7c12d9bb62511;hb=7bbb45295594e9574ee64a32fac17a93b5aa6ade;hp=517189d6e22030c5616051bb1ca8eee79af80ea9;hpb=981151c18f56df55254d5a591923631f4edd0b53;p=jalview.git diff --git a/wiki/GSDI.wiki b/wiki/GSDI.wiki index 517189d..ac4db98 100644 --- a/wiki/GSDI.wiki +++ b/wiki/GSDI.wiki @@ -30,7 +30,7 @@ Must be in phyloXML format unless option -q is used ([http://forester.googlecode === 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 log file, ending in `"_gsdi_log.txt"` ([http://forester.googlecode.com/files/wnt_gsdi_log.txt example]) * 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 based 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"`.