From e76f1a0b4d7acd63fa70a583bb73921c4f2a298d Mon Sep 17 00:00:00 2001 From: mrmckain Date: Mon, 1 Feb 2016 01:49:08 -0600 Subject: [PATCH] Updated README for version. --- README.md | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index efb5aba..db4a625 100644 --- a/README.md +++ b/README.md @@ -5,6 +5,7 @@ PUG--Phylogenetic Placement of Polyploidy Using Genomes Author: Michael R. McKain

Version 2.0, June 30, 2015 +Version 2.1, February 1, 2016

Contact: https://github.com/mrmckain

Description

@@ -73,7 +74,7 @@ perl PUG.pl --paralogs file --trees directory --outgroups list --species species -species_tree Newick format tree with species relationships of all taxa present in gene trees. The names of these taxa must be represented in the names of the genes in the gene trees and in the paralogs file. Make sure they are unique and do not overlap with any other portion of the gene names. -name Identifier for this run. This is be a prefix to all output files. [Default = "PUG"] -all_pairs Flag that allows for counting of all paralog pairs, not just unique LCAs. - -estimate_paralogs Estimates all possible unique gene pairs from gene trees to test with PUG algorithm. + -estimate_paralogs Estimates all possible unique gene pairs from gene trees to test with PUG algorithm. -help Brief help message -man Full documentation