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

R htmlwidget for Jellyfish

Tool for estimating the Felsenstein bootstrap support of phylogenetic trees

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

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

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

Phylogenetic Inference and Data Visualization for Sequence-Based Typing Methods

Genomic Epidemiology of SARS-CoV-2 in Pakistan

GRAPPA: Genome Rearrangements Analysis under Parsimony and other Phylogenetic Algorithms

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

A Framework for Large Scale Phylogenetic Analysis

An in vivo PRA reveals intronic motifs that combinatorially regulate splicing in a tissue-biased manner.

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

This tool provides a modular WDL-Docker-Cromwell environment for rMAP, a bioinformatics pipeline for analyzing microbial genomic data, genome assembly & profiling of the resistome, mobilome & virulome, as well as pangenome & MLST typing, BLASTn & phylogenetic analysis. It includes all required tools, enabling reproducible & scalable analysis