A Python phyloinformatic toolkit, and an implementation of tree-heterogeneous models of evolution
☆30Mar 11, 2026Updated last week
Alternatives and similar repositories for p4-phylogenetics
Users that are interested in p4-phylogenetics are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Fast, accurate species tree estimation.☆12Aug 29, 2024Updated last year
- Perl script for manipulating multiple sequence alignments for phylogenetic reconstruction☆11Sep 29, 2014Updated 11 years ago
- Bash scripts for analysis of Hyb-Seq data (from raw reads to species trees/networks)☆20Feb 26, 2026Updated 3 weeks ago
- Phylogenetic penalized likelihood☆54Jun 27, 2025Updated 8 months ago
- DPPDIV☆12Apr 10, 2020Updated 5 years ago
- PartitionFinder discovers optimal partitioning schemes for DNA sequences.☆71Mar 10, 2021Updated 5 years ago
- Code for computing various support scores for internodes☆19Apr 7, 2020Updated 5 years ago
- R code for writing Beast2 XML (especially morphology/tip-dating)☆11Jun 26, 2024Updated last year
- Straightforward & minimalistic removal of poorly aligned regions in sequence alignments.☆17Mar 18, 2019Updated 7 years ago
- Helper scripts for processing and visualization of phylogenetics datasets☆31Feb 19, 2024Updated 2 years ago
- Program to run the SOWH test (likelihood-based test used to compare tree topologies which are not specified a priori)☆11May 3, 2024Updated last year
- Accurate Species TRee ALgorithm☆275Apr 1, 2024Updated last year
- ☆22Oct 31, 2025Updated 4 months ago
- Python framework for phylogenetic tree landscapes☆19Jan 19, 2016Updated 10 years ago
- Implementation of the TreeShrink problem☆55Sep 13, 2024Updated last year
- Pipeline for generate Ks plots of transcriptome data.☆12Dec 27, 2017Updated 8 years ago
- A tool to root phylogenies☆23Sep 5, 2024Updated last year
- Amalgamated likelihood estimation (ALE) is a probabilistic approach to exhaustively explore all reconciled gene trees that can be amalgam…☆53May 14, 2025Updated 10 months ago
- A python tool for rapidly assessing the monophyly of user-defined groups in phylogenetic trees.☆10Apr 25, 2024Updated last year
- phylogenetics tools for linux (and other mostly posix compliant) computers☆123Jan 17, 2025Updated last year
- SimPhy: A comprehensive simulator of gene family evolution☆34Jun 30, 2023Updated 2 years ago
- ☆21Dec 30, 2025Updated 2 months ago
- ☆44Sep 5, 2023Updated 2 years ago
- ☆16Feb 20, 2024Updated 2 years ago
- GeneMiner: a tool for extracting phylogenetic markers from next-generation sequencing data☆12Feb 22, 2024Updated 2 years ago
- Scripts for homology and orthology assessment from genomic sequences.☆19Oct 5, 2020Updated 5 years ago
- Linear-time rooting of phylogenetic trees☆18Jun 12, 2023Updated 2 years ago
- Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files☆129Dec 6, 2021Updated 4 years ago
- Manipulate and generate figures for trees in Newick format☆22Jul 31, 2025Updated 7 months ago
- an ensemble usage of MAFFT-linsi --add on large datasets☆13May 31, 2024Updated last year
- Drawing reconciled phylogenetic trees allowing 1, 2 or 3 reconcillation levels☆23Oct 24, 2025Updated 4 months ago
- ☆10Apr 20, 2018Updated 7 years ago
- A bioinformatics package for creating, filtering, and manipulating supermatrices and phylogenetic datasets using GenBank and/or local seq…☆44Apr 25, 2024Updated last year
- STAG: Species Tree from All Genes☆35Dec 10, 2018Updated 7 years ago
- A Python library for phylogenetic scripting, simulation, data processing and manipulation.☆233Jan 8, 2026Updated 2 months ago
- A multi-algorithmic framework for phylogenetic inference☆14Nov 28, 2025Updated 3 months ago
- Decomposition Into Single-COpy gene trees (DISCO) is a method for decomposing multi-copy gene-family trees while attempting to preserve o…☆11Jun 19, 2025Updated 9 months ago
- A Python library for interacting with ENA's API☆25Aug 10, 2021Updated 4 years ago
- Self-Updating Platform for the Estimation of Rates of Speciation, Migration And Relationships of Taxa☆17Jun 24, 2020Updated 5 years ago