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24 search results found

Bayesian Evolutionary Analysis by Sampling Trees

Beast Mcmc ⭐ 166

Bayesian Evolutionary Analysis Sampling Trees

PhyML -- Phylogenetic estimation using (Maximum) Likelihood

Comparative Genomics Toolkit 3

a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference

a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies

Archaeopteryx Js ⭐ 37

Archaeopteryx.js is a software tool for the visualization and analysis of highly annotated phylogenetic trees.

FAVITES (FrAmework for VIral Transmission and Evolution Simulation)

Busco_phylogenomics ⭐ 26

BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins

Orthosnap ⭐ 16

a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees

Bio Phylo ⭐ 15

Bio::Phylo - Phyloinformatic analysis using Perl

Plantphylomoji ⭐ 14

Dataset and scripts to create a Phylogeny of Plant Emojis

Cafeplotter ⭐ 13

A tool for plotting CAFE5 gene family expansion/contraction result

Datelife ⭐ 11

R package containing datelife's core functionality

Whale.jl ⭐ 10

Bayesian gene tree reconciliation and WGD inference using amalgamated likelihood estimation

Trisicell ⭐ 9

Scalable tumor phylogeny inference and validation from single-cell RNA or DNA data

R package to perform sensitivity analysis for comparative methods

Course R Mol Data ⭐ 8

R is nowadays probably the most powerful tool for calculations of all kinds. There are plenty of modules available for work with molecular data. Those will be introduced during the course.

Source code for TreeBASE web application and database

Phyloxml Js ⭐ 6

phyloxml.js is a JavaScript program for reading (SAX style parser) and writing phylogenetic trees in phyloXML format.

Phylogenies.jl ⭐ 6

The BioJulia package for working with phylogenetic trees and geneologies.

Scistreer ⭐ 5

R/Rcpp implementation of the ScisTree algorithm

Coelacanthevolution ⭐ 5

Analyses of coelacanth morphometrics, disparity, phylogeny, and rate of evolution

Scphylo Tools ⭐ 5

a python toolkit for single-cell tumor phylogenetic analysis

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