Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

Phylogenetic analysis in R

LinguaPhylo: A language for describing, visualising and simulating probabilistic phylogenetic models

Script for removing or counting invariant sites for the RAxML ascertainment bias corrections

A Modular and Web-Based Tool for Phylogenetic Analysis

Tool for estimating the Felsenstein bootstrap support of phylogenetic trees

a tool for automatic construction of molecular data matrix for phylogenetic inference based on GenBank records

An R package to prepare data for phylogenetic analysis

Phylogenetic Inference and Data Visualization for Sequence-Based Typing Methods

R htmlwidget for Jellyfish

Genomic Epidemiology of SARS-CoV-2 in Pakistan

Deep Learning techniques applied to Phylogenetic Analysis

Morphy releases are archived here. This project serves as the root folder for all of the source projects in Morphy.

Jellyfish plots for integrative visualization of spatio-temporal tumor evolution and clonal dynamics

A Framework for Large Scale Phylogenetic Analysis

GRAPPA: Genome Rearrangements Analysis under Parsimony and other Phylogenetic Algorithms

Repositório para apresentação de código desenvolvido pelo grupo 3 para a UC Algoritmos para Análise Sequências Biológicas do Mestrado em Bioinformática, ano lectivo 23-24.

COEDL Summer School 2019 - Language Phylogenies Tutorial

A comparative annotation toolkit (CAT) pipeline for 304 fly genomes.

Github repository for "Sequential trait evolution did not drive deep-time diversification in sharks" article, published in Evolution