arzwa / wgdView external linksLinks
Python package and CLI for whole-genome duplication related analyses. **This package is deprecated in favor of** https://github.com/heche-psb/wgd.
☆86Jan 6, 2026Updated last month
Alternatives and similar repositories for wgd
Users that are interested in wgd are comparing it to the libraries listed below
Sorting:
- This python script can be used to detect Whole-genome duplication (WGD) with the dS based method.☆25Feb 22, 2019Updated 6 years ago
- ☆21Sep 12, 2019Updated 6 years ago
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆70Mar 23, 2025Updated 10 months ago
- ☆45Oct 29, 2022Updated 3 years ago
- ☆21Aug 8, 2024Updated last year
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆159Nov 4, 2025Updated 3 months ago
- Instruction and scripts for reconstructing ancestral genome from pairwise syntenic blocks using MLGO☆13Oct 30, 2018Updated 7 years ago
- Phylogenetic iDentification of Subgenomes☆10Jul 7, 2022Updated 3 years ago
- ☆86Jul 12, 2024Updated last year
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆37Feb 12, 2025Updated last year
- Reconstruction of ancestral genome maps☆16Mar 29, 2018Updated 7 years ago
- Robust identification of orthologous Synteny with the Orthology Index☆38Feb 1, 2026Updated last week
- 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
- Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.☆119Apr 7, 2021Updated 4 years ago
- Version 5 of the CAFE phylogenetics software☆159Feb 12, 2025Updated last year
- A Python package for testing evolutionary hypotheses in genome-wide approaches.☆33Mar 5, 2021Updated 4 years ago
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated last year
- reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph☆18Jul 26, 2023Updated 2 years ago
- A pipeline used to identify different modes of duplicated gene pairs☆117Jul 22, 2025Updated 6 months ago
- Homologizer: phasing gene copies into polyploid subgenomes☆11Feb 3, 2026Updated last week
- ☆29Jul 16, 2022Updated 3 years ago
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆20Jan 21, 2026Updated 3 weeks ago
- This is the standalone version of the EviAnn pipeline☆136Feb 5, 2026Updated last week
- ☆17Oct 21, 2024Updated last year
- i-ADHoRe is a highly sensitive software tool to detect degenerated homology relations within and between different genomes.☆17Jun 28, 2024Updated last year
- Python library to facilitate genome assembly, annotation, and comparative genomics☆889Dec 22, 2025Updated last month
- Extensive de-novo TE Annotator☆429Oct 12, 2025Updated 4 months ago
- Synteny and Rearrangement Identifier☆447Apr 29, 2025Updated 9 months ago
- Bayesian gene tree reconciliation and WGD inference using amalgamated likelihood estimation☆16Apr 29, 2025Updated 9 months ago
- A genome assembly assessment pipeline.☆37Nov 20, 2023Updated 2 years ago
- ☆26Jan 26, 2026Updated 2 weeks ago
- Workflow for Building Microsynteny Networks☆58Jul 30, 2022Updated 3 years ago
- Accurate Species TRee ALgorithm☆271Apr 1, 2024Updated last year
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆291Jan 30, 2026Updated 2 weeks ago
- 3D de novo assembly (3D DNA) pipeline☆221Nov 29, 2023Updated 2 years ago
- Simple tools for working with Hi-C data☆18Dec 19, 2018Updated 7 years ago
- Reference-free profiling of polyploid genomes☆141Oct 2, 2025Updated 4 months ago
- source code for EVM☆122Nov 29, 2024Updated last year
- ☆76Apr 23, 2020Updated 5 years ago