Library for analyzing and manipulating phylogenetic trees
☆16Jan 22, 2026Updated last month
Alternatives and similar repositories for phylotreelib
Users that are interested in phylotreelib are comparing it to the libraries listed below
Sorting:
- R package to calculate the similarity of two trees based on the number of shared four-taxon subtrees (or splits)☆16Feb 16, 2026Updated 3 weeks ago
- Bash scripts for analysis of Hyb-Seq data (from raw reads to species trees/networks)☆20Feb 26, 2026Updated last week
- Supporting repository for "Protein language models trained on multiple sequence alignments learn phylogenetic relationships" (https://www…☆17Jan 17, 2025Updated last year
- Python version of PHLAWD☆21Oct 28, 2024Updated last year
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆22Jan 21, 2026Updated last month
- ☆22Mar 25, 2014Updated 11 years ago
- Lightweight header-only C++ library for loading and traversing trees☆24Mar 9, 2025Updated last year
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆29Aug 15, 2024Updated last year
- A Python phyloinformatic toolkit, and an implementation of tree-heterogeneous models of evolution☆30Jan 4, 2025Updated last year
- LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files☆36Jul 5, 2025Updated 8 months ago
- Fast and accurate Phylogeny estimation with self-attention Networks☆42Apr 19, 2025Updated 10 months ago
- Gene tree - species tree reconciliation from gene tree distributions☆40Nov 19, 2025Updated 3 months ago
- Detecting Archaic Introgression from Population Genetic Data with S*☆10Jan 28, 2026Updated last month
- An efficient tool for cross-population fixation index estimation on variant call format files☆11Mar 1, 2026Updated last week
- Calculate distances between phylogenetic trees in R☆35Updated this week
- Browser-based utility for phylogenetic tree visualisation.☆40Feb 4, 2026Updated last month
- An R package to visualize chromosome scale repeat patterns and predict centromere locations.☆45Nov 1, 2025Updated 4 months ago
- TreeSwift: Fast tree module for Python 3☆86Nov 19, 2024Updated last year
- MeShClust: an intelligent tool for clustering DNA sequences☆39Jan 14, 2022Updated 4 years ago
- ☆12Feb 16, 2025Updated last year
- Gapless provides combined scaffolding, gap-closing and assembly correction with long reads☆38Mar 5, 2023Updated 3 years ago
- misFinder: Identify mis-assemblies in an unbiased manner using reference and paired-end reads☆10Oct 17, 2015Updated 10 years ago
- Leaping through tree space: continuous phylogenetic inference for rooted and unrooted trees☆12Sep 6, 2023Updated 2 years ago
- Postprocessing gadgets for output generated by RevBayes☆14Feb 22, 2026Updated 2 weeks ago
- SYNPHONI is a tool designed for reconstructing the dynamic evolution of syntenic relationships across all scales of phylogenetic distance…☆12May 7, 2023Updated 2 years ago
- Bayesian estimation of the evolutionary rate matrix.☆10Dec 8, 2025Updated 3 months ago
- an R based software package that makes polygenic traits prediction using gradient boosted and LD adjusted gene score weights.☆10Apr 9, 2019Updated 6 years ago
- Scripts in R for Landscape Genomics Analyses v.2☆10Feb 17, 2023Updated 3 years ago
- Infomap Bioregions: Interactive mapping of biogeographical regions from species distributions☆12Dec 18, 2025Updated 2 months ago
- Graphical Representation of Ancestral Sequence Predictions☆12Mar 6, 2023Updated 3 years ago
- ☆12Aug 23, 2023Updated 2 years ago
- DNA and RNA variant calling pipelines with HLA typing and Neoantigen predictions☆11Jul 8, 2021Updated 4 years ago
- Chromosome Scale Assembler: A high-throughput chromosome scale genome assembly pipeline for vertebrate genomes☆10Oct 16, 2024Updated last year
- PhyloForge: Unifying micro and macro evolution with comprehensive genomic signals☆10May 17, 2024Updated last year
- SNP and indel calls from multiple sequence alignment (MSA)☆13Nov 11, 2022Updated 3 years ago
- MGcount github repository☆14Jan 19, 2023Updated 3 years ago
- Calculates the probability of a haplotype given a population reference panel☆12Dec 9, 2024Updated last year
- Package for species delimitation analysis☆11Jan 7, 2025Updated last year
- ☆11Dec 1, 2020Updated 5 years ago