summaryrefslogtreecommitdiff
path: root/academic/seaview/README
diff options
context:
space:
mode:
authorPetar Petrov <ppetrov@paju.oulu.fi>2012-06-30 11:59:43 -0400
committerdsomero <xgizzmo@slackbuilds.org>2012-06-30 11:59:43 -0400
commit45b68fd192cd8e1f13d7cbfc422271dd28e9db12 (patch)
tree2dfce897aa2f1a16e1602eef03fe10a074912597 /academic/seaview/README
parent344022d9c3550b4a266713fe1b5987f9dac85e9b (diff)
downloadslackbuilds-45b68fd192cd8e1f13d7cbfc422271dd28e9db12.tar.gz
academic/seaview: Updated for version 4.3.4.
Signed-off-by: dsomero <xgizzmo@slackbuilds.org>
Diffstat (limited to 'academic/seaview/README')
-rw-r--r--academic/seaview/README36
1 files changed, 18 insertions, 18 deletions
diff --git a/academic/seaview/README b/academic/seaview/README
index 21de5ab1c5..7b3a2aa174 100644
--- a/academic/seaview/README
+++ b/academic/seaview/README
@@ -1,32 +1,32 @@
-SeaView is a multiplatform, graphical user interface for multiple
+SeaView is a multiplatform, graphical user interface for multiple
sequence alignment and molecular phylogeny. Important features are:
-1) SeaView reads and writes various file formats (NEXUS, MSF,
- CLUSTAL, FASTA, PHYLIP, MASE, Newick) of DNA and protein sequences
+1) SeaView reads and writes various file formats (NEXUS, MSF,
+ CLUSTAL, FASTA, PHYLIP, MASE, Newick) of DNA and protein sequences
and of phylogenetic trees.
-
-2) SeaView drives programs muscle or clustalw for multiple sequence
- alignment, and also allows to use any external alignment algorithm
+
+2) SeaView drives programs muscle or clustalw for multiple sequence
+ alignment, and also allows to use any external alignment algorithm
able to read and write FASTA-formatted files.
-
-3) Seaview drives the Gblocks program to select blocks of
+
+3) Seaview drives the Gblocks program to select blocks of
evolutionarily conserved sites.
-
+
4) SeaView computes phylogenetic trees by
a) parsimony, using PHYLIP's dnapars/protpars algorithm,
- b) distance, with NJ or BioNJ algorithms on a variety of
+ b) distance, with NJ or BioNJ algorithms on a variety of
evolutionary distances,
c) maximum likelihood, driving program PhyML 3.0.
-
+
5) SeaView draws phylogenetic trees on screen, PDF or PostScript files
-6) SeaView allows to download sequences from EMBL/GenBank/UniProt
+6) SeaView allows to download sequences from EMBL/GenBank/UniProt
using the Internet.
For details and citation:
-Gouy M., Guindon S. & Gascuel O. (2010) SeaView version 4 : a
-multiplatform graphical user interface for sequence alignment and
-phylogenetic tree building. Molecular Biology and Evolution
-27(2):221-224.
+Gouy M., Guindon S. & Gascuel O. (2010) SeaView version 4 : a
+multiplatform graphical user interface for sequence alignment and
+phylogenetic tree building. Molecular Biology and Evolution
+27(2):221-224.
-This requires fltk as a build dependency, but you also need clustalw,
-Gblocks, PhyML, and muscle, all of which SeaView drives.
+This requires fltk13. You will also need clustalw, Gblocks, PhyML, and
+muscle, all of which SeaView drives.