TreeSwift: Fast tree module for Python 3
☆86Nov 19, 2024Updated last year
Alternatives and similar repositories for TreeSwift
Users that are interested in TreeSwift are comparing it to the libraries listed below
Sorting:
- Lightweight header-only C++ library for loading and traversing trees☆24Mar 9, 2025Updated 11 months ago
- Python version of PHLAWD☆21Oct 28, 2024Updated last year
- A minimalist tree plotting library using toyplot graphs☆189Feb 8, 2026Updated 3 weeks ago
- ☆21Mar 19, 2025Updated 11 months ago
- ☆22Mar 25, 2014Updated 11 years ago
- Ancestral Sequence Reconstruction in Python☆14May 9, 2019Updated 6 years ago
- Estimating time trees from very large phylogenies☆28Jul 21, 2024Updated last year
- A Python library for phylogenetic scripting, simulation, data processing and manipulation.☆231Jan 8, 2026Updated last month
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Sep 23, 2025Updated 5 months ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆77Aug 30, 2016Updated 9 years ago
- Bash scripts for analysis of Hyb-Seq data (from raw reads to species trees/networks)☆20Feb 23, 2026Updated last week
- Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction☆249Updated this week
- Main development repository for SpreadGL☆20Sep 30, 2024Updated last year
- Fast implementation of the Neighbour-Joining method for phylogenetic inference☆18Sep 10, 2024Updated last year
- A tool for exploring large trees in the browser☆123Feb 4, 2026Updated 3 weeks ago
- Tools for haplotype-wise reconstruction of pseudomolecules☆22Sep 5, 2025Updated 5 months ago
- a versatile toolkit for processing and analyzing diverse types of sequence data☆22Feb 18, 2026Updated last week
- A Python phyloinformatic toolkit, and an implementation of tree-heterogeneous models of evolution☆30Jan 4, 2025Updated last year
- Sequence simulator☆55Feb 3, 2025Updated last year
- Modeling gene duplication, loss, and coalescence (through parsimony)☆10Jun 18, 2020Updated 5 years ago
- Tools for analyzing and comparing SARS-CoV-2 phylogenies☆10Nov 21, 2020Updated 5 years ago
- Code for computing various support scores for internodes☆19Apr 7, 2020Updated 5 years ago
- Parallel/Homoplasic SNP Finder☆21May 3, 2023Updated 2 years ago
- Accurate Species Tree EstimatoR: a family of optimation algorithms for species tree inference (including ASTRAL & CASTER)☆226Jan 4, 2026Updated last month
- Gotree is a set of command line tools and an API to manipulate phylogenetic trees. It is implemented in Go language.☆143Feb 10, 2026Updated 3 weeks ago
- A tool to root phylogenies☆23Sep 5, 2024Updated last year
- Python bindings for the TaxonKit library☆43Feb 2, 2026Updated last month
- Simulating paired-end short sequencing reads from circular and linear genomes☆15May 14, 2021Updated 4 years ago
- localised duplicate detection on patterned flow cells☆10Feb 27, 2019Updated 7 years ago
- A multi-algorithmic framework for phylogenetic inference☆14Nov 28, 2025Updated 3 months ago
- Colinear block visualisation tool☆31Jan 17, 2024Updated 2 years ago
- Goalign is a set of command line tools and an API to manipulate multiple sequence alignments. It is implemented in Go language.☆89Feb 19, 2026Updated last week
- shell tools for processing phylogenetic trees☆119Aug 30, 2022Updated 3 years ago
- blast, shmlast☆21Oct 5, 2020Updated 5 years ago
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆21Oct 20, 2023Updated 2 years ago
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Jun 4, 2022Updated 3 years ago
- Easily download genomes and build BLAST/Bowtie indexes in Python☆22Sep 30, 2022Updated 3 years ago
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆37Dec 20, 2024Updated last year
- Efficient phylogenetic clustering of viral sequences☆93Nov 19, 2025Updated 3 months ago