Software


Topic Replies Activity
Category definition for Software 1 February 9, 2014
[Paper] An Annealed Sequential Monte Carlo Method for Bayesian Phylogenetics 1 July 10, 2019
New software for supermtatrices of many genes/species 1 March 12, 2019
Fast implementation of branch length likelihood gradients anywhere? 2 July 10, 2018
Balanced minimum evolution computation in R 3 February 22, 2018
Split decomposition 3 February 7, 2018
IQ-TREE: Phylogenomic inference software 4 December 24, 2017
Interactive Phylogentic Tree 1 November 16, 2017
Looking for a zoomable tree to interface with mySQL for selection 2 November 1, 2017
Speeding up Felsenstein's pruning algorithm 7 November 1, 2017
RelTime rates collapses to a strict clock 2 May 8, 2017
Unit tests for phylogenetic likelihood computation? 10 April 28, 2017
Phylobayes: alpha, statalpha, rrmean, rrent, statent and Nmode parameters 1 April 27, 2017
A sane parsimony implementation 6 March 23, 2017
Exporting ancestral reconstructions from PAUP* 2 March 14, 2017
PLL (Phylogenetic Likelihood Library from Stamatakis group) is up 10 December 12, 2016
Ggtree for viewing and annotating phylogenetic tree 2 August 22, 2016
Manually editing alignments on a mac 14 July 26, 2016
[Paper] PUmPER: phylogenies updated perpetually 2 June 24, 2016
Mesquite and TreeBASE NEXUS file formats 5 April 29, 2016
Concatenate many genes together for each taxon 1 April 13, 2016
Genesis SW for post-processing phylogenetic placements 5 April 5, 2016
Efficient detection of repeating sites to accelerate phylogenetic likelihood calculations 2 March 29, 2016
Phylogenetic Placement Visualization 1 January 30, 2016
The State of Software in Evolutionary Biology 4 November 23, 2015
`rotl`, an R package to access the Open Tree of Life data 1 November 5, 2015
Visualising big trees (again) 5 September 23, 2015
p4 Python phylogenetics toolkit 1 August 28, 2015
DendroPy 4.0.0 has been released 3 August 6, 2015
Interesting phylogenetic search heuristics 4 August 4, 2015