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Created on: 09-Sep-2012
Last updated on: 09-Sep-2012
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Total resources - 22
A list of resources for phylogeny/taxonomy
Sravanthi Davuluri and Akhilesh Bajpai (Correspondence: Acharya KK, kshitish@ibab.ac.in)
S.No
Resources
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Short description*
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More Details
Method Description
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1
PHASE - a software package for PHylogenetics And Sequence Evolution
http://www.bioinf.man.ac.uk/resources/phase
49
2
PHYLIP
http://evolution.genetics.washington.edu/phylip.html
Free package of programs for inferring phylogenies
49
3
PAUP
http://paup.csit.fsu.edu
Tools for inferring and interpreting phylogenetic trees
82
4
Phylodendron - Phylogenetic tree drawing
http://iubio.bio.indiana.edu/treeapp
96
5
T-REX
http://www.trex.uqam.ca
96
6
ClustalW2 - Phylogeny
http://www.ebi.ac.uk/Tools/phylogeny/clustalw2_phylogeny
98
7
iTOL - Interactive Tree Of Life
http://itol.embl.de/index.shtml
98
8
MLTreemap - Maximum Linkage Tree map
http://mltreemap.org
Phylogenetic analysis of NGS data
98
9
TreeGraph
http://treegraph.bioinfweb.info
Graphical editor for phylogenetic trees
98
10
DIVEIN
http://indra.mullins.microbiol.washington.edu/DIVEIN/
Performs automated phylogenetic analysis of nucleotide and amino acid sequences
98
11
TNT - Tree Analysis Using New Technology
http://www.cladistics.org/downloads/webtnt.html
99
12
AMPHORA
http://openwetware.org/wiki/AMPHORA
Automated phylogenomic inference pipeline for bacterial sequences
100
13
ArboDraw
http://dunbrack.fccc.edu/ArboDraw
Builds and displays phylogenetic trees of protein and nucleic acid sequences
100
14
Phylogenetic Tree Generator
http://www.bioinfoproject.com/tools/phylogeny/index.htm
100
15
Phylogeny Analysis
http://www.phylogeny.fr/version2_cgi/phylogeny.cgi
100
16
phyloGif - Interactive Phylogenetic Tree Gif Maker
http://genome.csdb.cn/cgi-bin/phyloGif
100
17
Pplacer
http://matsen.fhcrc.org/pplacer
Query sequences on a fixed reference phylogenetic tree
100
18
QuickTree
http://mobyle.pasteur.fr/cgi-bin/portal.py?#forms::quicktree
Rapid reconstruction of phylogenies by the Neighbor-Joining method
100
19
TOPD/FMTS
http://genomes.urv.cat/topd
Calculate the differences between trees
100
20
TreeMaker
http://www.agapow.net/software/treemaker
Interactive building and editing of a taxonomy and its conversion into a phylogeny
100
URL not working as on 9 Feb 2015
21
TREE-PUZZLE
http://www.tree-puzzle.de
Maximum likelihood analysis for nucleotide, amino acid, and two-state data
100
22
TreeTop - Phylogenetic Tree Prediction
http://www.genebee.msu.su/services/phtree_reduced.html
100
Please use the following to cite:
"Sravanthi Davuluri and Akhilesh Bajpai (Correspondence: Acharya KK, kshitish@ibab.ac.in), list of resources for phylogeny/taxonomy; In: Startbioinfo; 09 Sep 2012, /cgi-bin/prelimresources.pl?tn=Phylogeny"
Disclaimer
copyright © Dr. Kshitish Acharya K; all rights reserved
Some of the sentences in this column may be quoted from the original website of the corresponding tool or database