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

R htmlwidget for Jellyfish

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

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

Deep Learning techniques applied to Phylogenetic Analysis

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.

This Docker image provides a ready-to-use environment for rMAP, a bioinformatics pipeline for analyzing microbial genomic data & profiling Resistome, Mobilome & Virulome. It includes all required tools & dependencies, enabling reproducible, scalable analysis of NGS data in research & public health settings, particularly for low-resource environment

COEDL Summer School 2019 - Language Phylogenies Tutorial