30 Open source projects that are alternatives of or similar to libpll

A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using coalescent and concatenation approaches

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

Phylogenetic trees in Julia

𝙋𝙝𝙮𝙡𝙤𝙜𝙚𝙣𝙚𝙩𝙞𝙘 𝘾𝙤𝙢𝙥𝙤𝙣𝙚𝙣𝙩 𝙂𝙧𝙖𝙥𝙝 ⸺ Haskell program and libraries for general phylogenetic graph search

Version 5 of the CAFE phylogenetics software

A library for working with phylogenetic and population genetic data.

Python version of PHLAWD

A course in the theory and practice of phylogenetic inference from DNA sequence data

PhyML -- Phylogenetic estimation using (Maximum) Likelihood

Alignment editor for Mac OS X

Ancestor character reconstruction and visualisation for rooted phylogenetic trees

Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files

R package for statistical inference using partially observed Markov processes

Workflow for Building Microsynteny Networks

baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development is back on the evogytis/baltic branch (i.e. here).

Implementing semantically rich NeXML I/O in R

Biological Sequence Substitution Models for Julia

booster.c3bi.pasteur.fr

A homology-based, computationally lightweight pipeline for discovering genes in the absence of an assembly

Hierarchical orderings for mass spectrometry data. Canonically pronounced "chemis-tree".

Model manipulation and fitting library based on TensorFlow and optimised for simple and direct manipulation of probability density functions. Its main focus is on scalability, parallelisation and user friendly experience.

💾 📃 "Reads to report" for public health and clinical microbiology

Ultrafast Sample Placement on Existing Trees

Sequential Tree Sampler for online phylogenetics

♥ Fast and Accurate Estimation of Evolutionary Distances

A Python package for gene-centric taxonomic and functional classification using phylogenetic placement

Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.

A tool for exploring very large trees in the browser

FAVITES (FrAmework for VIral Transmission and Evolution Simulation)

Official git repository for Biopython (originally converted from CVS)