Efficient phylogenomic software by maximum likelihood
☆211Nov 4, 2021Updated 4 years ago
Alternatives and similar repositories for IQ-TREE
Users that are interested in IQ-TREE are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- RAxML Next Generation: faster, easier-to-use and more flexible☆476Updated this week
- IQ-TREE software version 2: phylogenetics by maximum likelihood☆335Jul 22, 2026Updated 3 weeks ago
- A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0☆269Updated this week
- NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms whil…☆89May 15, 2019Updated 7 years ago
- Fast genome analysis from unassembled short reads☆325Apr 8, 2024Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- phylogenetics tools for linux (and other mostly posix compliant) computers☆127Apr 18, 2026Updated 3 months ago
- Bayesian Evolutionary Analysis by Sampling Trees☆280Jul 13, 2026Updated last month
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆298May 28, 2026Updated 2 months ago
- Benchmark empirical datasets for phylogenetic method development☆20Dec 5, 2023Updated 2 years ago
- ☆351Mar 4, 2025Updated last year
- Accurate Species TRee ALgorithm☆281Apr 1, 2024Updated 2 years ago
- ☆20Jun 15, 2024Updated 2 years ago
- Synteny and Rearrangement Identifier☆485Jul 1, 2026Updated last month
- Leaping through tree space: continuous phylogenetic inference for rooted and unrooted trees☆12Sep 6, 2023Updated 2 years ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Accelerated BLAST compatible local sequence aligner.☆1,314Aug 4, 2026Updated last week
- PhyML -- Phylogenetic estimation using (Maximum) Likelihood☆199May 28, 2026Updated 2 months ago
- Phylogenetic orthology inference for comparative genomics☆870Jul 15, 2025Updated last year
- Pairwise SNP distance matrix from a FASTA sequence alignment☆156Dec 31, 2025Updated 7 months ago
- Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.☆125Apr 7, 2021Updated 5 years ago
- Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection …☆885Jun 1, 2026Updated 2 months ago
- Mummer alignment tool☆571Feb 4, 2025Updated last year
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆214Nov 18, 2022Updated 3 years ago
- A fast approximate aligner for long DNA sequences☆289Oct 11, 2024Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- software for UCE (and general) phylogenomics☆89Updated this week
- A variational framework for inferring population structure from SNP genotype data.☆143Jan 6, 2023Updated 3 years ago
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆173May 30, 2021Updated 5 years ago
- BESST - scaffolder for genomic assemblies☆58Jul 6, 2023Updated 3 years ago
- Tools for fast and flexible genome assembly scaffolding and improvement☆575Feb 14, 2024Updated 2 years ago
- Automatically exported from code.google.com/p/figtree☆487May 17, 2026Updated 3 months ago
- Implementation of a polymorphism aware phylogenetic model using HYPHY☆19Jan 14, 2022Updated 4 years ago
- Fast and accurate genomic distances using HyperLogLog☆162Jan 19, 2023Updated 3 years ago
- Fast genome-wide functional annotation through orthology assignment☆763Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A user-friendly workflow for phylogenomics☆232Updated this week
- Find, circularise and annotate mitogenome from PacBio assemblies☆199May 11, 2025Updated last year
- Data and scripts for Zika virus tutorial☆10Jul 21, 2026Updated 3 weeks ago
- Bio::Phylo - Phyloinformatic analysis using Perl☆17Dec 11, 2025Updated 8 months ago
- A Python library for phylogenetic scripting, simulation, data processing and manipulation.☆236Jul 13, 2026Updated last month
- A fast multi-threaded k-mer counter☆550Mar 20, 2024Updated 2 years ago
- hybrid assembly pipeline for bacterial genomes☆650Jul 29, 2026Updated 2 weeks ago