dongzhang0725 / PhyloSuiteView external linksLinks
PhyloSuite is an integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies
☆166Nov 27, 2025Updated 2 months ago
Alternatives and similar repositories for PhyloSuite
Users that are interested in PhyloSuite are comparing it to the libraries listed below
Sorting:
- EasyCodeML: A visual tool for analysis of selection using CodeML☆83May 7, 2023Updated 2 years ago
- Taxonomy-aware DNA sequence processing toolkit☆32Updated this week
- MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes☆135Nov 6, 2024Updated last year
- A Windows Graphical Platform for Batch Manipulation of Tremendous Amount of Sequence Data☆30Apr 22, 2021Updated 4 years ago
- A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0☆248Updated this week
- GUI/CommandLine Tool Box for biologistists to utilize NGS data.☆1,028Jan 29, 2026Updated 2 weeks ago
- A richly featured desktop platform for data analysis of bioinformatics. Especially, for quick sequence annotation and mutation analysis o…☆34Nov 6, 2024Updated last year
- A pipeline used to identify different modes of duplicated gene pairs☆117Jul 22, 2025Updated 6 months ago
- R and Python scripts used to simulate gene trees under coalescent model and detect gene flow using triple frequency☆15Dec 15, 2022Updated 3 years ago
- ☆16Feb 20, 2024Updated last year
- Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)☆369Feb 13, 2025Updated last year
- C program for selecting DNA substitution models using PAUP*☆18Mar 24, 2020Updated 5 years ago
- A tool to infer species tree and phylogenetic network from multilocus data☆32Jul 2, 2020Updated 5 years ago
- ☆347Mar 4, 2025Updated 11 months ago
- Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.☆119Apr 7, 2021Updated 4 years ago
- PhyloBayes: phylogenetic reconstruction using infinite mixtures (CAT and CAT-GTR) -- serial version (for MPI, see pbmpi.git)☆15Oct 21, 2021Updated 4 years ago
- Python library to facilitate genome assembly, annotation, and comparative genomics☆889Dec 22, 2025Updated last month
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆159Nov 4, 2025Updated 3 months ago
- The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".☆29Mar 19, 2021Updated 4 years ago
- Python package and CLI for whole-genome duplication related analyses. **This package is deprecated in favor of** https://github.com/heche…☆86Jan 6, 2026Updated last month
- Accurate Species TRee ALgorithm☆271Apr 1, 2024Updated last year
- Fast and accurate de novo assembler for long reads☆398May 10, 2024Updated last year
- MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentati…☆257Jan 9, 2026Updated last month
- STRIDE: Species Tree Root Inference from Gene Duplication Events☆11Aug 28, 2018Updated 7 years ago
- Posterior Analysis of Coalescent Trees☆14Aug 6, 2015Updated 10 years ago
- Phylogenetic tools for Eco-phylogenetics☆14Oct 10, 2024Updated last year
- a tool for inferring species tree from sequencing reads☆156Dec 9, 2025Updated 2 months ago
- PartitionFinder discovers optimal partitioning schemes for DNA sequences.☆71Mar 10, 2021Updated 4 years ago
- Mummer alignment tool☆548Feb 4, 2025Updated last year
- MitoDNA extending assembler from NGS data☆22Aug 21, 2025Updated 5 months ago
- Reconstruction of ancestral genome maps☆16Mar 29, 2018Updated 7 years ago
- Best-fit model selection☆87Mar 21, 2024Updated last year
- PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. Please report only **techni…☆183Jan 29, 2026Updated 2 weeks ago
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆215Jun 25, 2025Updated 7 months ago
- This python script can be used to detect Whole-genome duplication (WGD) with the dS based method.☆25Feb 22, 2019Updated 6 years ago
- Phylogenetic orthology inference for comparative genomics☆829Jul 15, 2025Updated 7 months ago
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics☆20Jan 13, 2019Updated 7 years ago
- Bayesian analysis of genomic sequence data under the multispecies coalescent model☆111Feb 10, 2026Updated last week
- Decomposition Into Single-COpy gene trees (DISCO) is a method for decomposing multi-copy gene-family trees while attempting to preserve o…☆10Jun 19, 2025Updated 7 months ago