From 6003647acc7e0b0f5dbe93c3f5b83af3bbf80d0a Mon Sep 17 00:00:00 2001 From: Kevin Howe Date: Fri, 10 Mar 2017 14:58:51 +0000 Subject: [PATCH] Updated README --- README.md | 12 ++++++------ 1 file changed, 6 insertions(+), 6 deletions(-) diff --git a/README.md b/README.md index 49b45f1..d5d1fbc 100644 --- a/README.md +++ b/README.md @@ -2,8 +2,8 @@ About QuickTree =============== QuickTree is an efficient implementation of the Neighbor-Joining -algorithm, capable of reconstructing phylogenies from huge alignments in -time less than the age of the universe. +algorithm (PMID: 3447015), capable of reconstructing phylogenies +from huge alignments in time less than the age of the universe. Installing QuickTree @@ -11,7 +11,7 @@ Installing QuickTree QuickTree is written in ANSI C and should complile and run on a number of different platforms. "make quicktree" from this directory should -compile the program and place the executable in ./bin. +compile the program and place the executable in the current directory. Using QuickTree @@ -23,8 +23,8 @@ QuickTree accepts both distance matrix and multiple-sequence-aligment inputs. The former should be in PHYLIP format. The latter should be in Stockholm format, which is the native alignment format for the Pfam database. Alignments in various formats can be converted to Stockholm -format with the sreformat program, which is part of the HMMer package by -Sean Eddy (hmmer.wustl.edu). +format with the sreformat program, which is part of the HMMer package +(hmmer.org). The tress are written to stdout, in the Newick/New-Hampshire format use by PHYLIP and many other programs. @@ -33,7 +33,7 @@ use by PHYLIP and many other programs. Contact ======= -Any problems, please contact klh@sanger.ac.uk +Any problems, please contact klh@ebi.ac.uk Kevin Howe, 2002