WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes
☆174Nov 4, 2025Updated 10 months ago
Alternatives and similar repositories for wgdi
Users that are interested in wgdi are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆26Dec 15, 2025Updated 9 months ago
- Centromics: visualing centromeres with multiple omics data☆27Mar 4, 2025Updated last year
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆76Jun 4, 2026Updated 3 months ago
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆286Aug 10, 2026Updated last month
- A novel genome assembly pipeline based on deep learning☆71Dec 2, 2024Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆70May 22, 2021Updated 5 years ago
- A pipeline used to identify different modes of duplicated gene pairs☆123Jul 22, 2025Updated last year
- Neural network classification of TE☆103Apr 3, 2026Updated 5 months ago
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆184Jun 23, 2026Updated 3 months ago
- A gap-closing software tool that uses long reads to enhance genome assembly.☆250Sep 6, 2024Updated 2 years ago
- Sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism and whole-genome duplication variation☆202Aug 17, 2026Updated last month
- ☆33Apr 7, 2025Updated last year
- Python package and CLI for whole-genome duplication related analyses. **This package is deprecated in favor of** https://github.com/heche…☆86Jan 6, 2026Updated 8 months ago
- Convert Tandem Repeat Finder dat file output into gff3 format☆32Sep 7, 2026Updated 2 weeks ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- An Example of Subgenome Phasing for Complex Allopolyploidy☆17Nov 6, 2025Updated 10 months ago
- Synteny and Rearrangement Identifier☆491Jul 1, 2026Updated 2 months ago
- haplotypic duplication identification tool☆295Oct 30, 2025Updated 10 months ago
- This is the standalone version of the EviAnn pipeline☆186Sep 10, 2026Updated 2 weeks ago
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆113Nov 17, 2025Updated 10 months ago
- use long sequenced reads to close gaps in assemblies☆40Sep 4, 2018Updated 8 years ago
- ☆50Jul 23, 2025Updated last year
- source code for EVM☆128Updated this week
- This python script can be used to detect Whole-genome duplication (WGD) with the dS based method.☆26Feb 22, 2019Updated 7 years ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- a gap-filling tools of genome in complex region.☆27Dec 30, 2025Updated 8 months ago
- Extensive de-novo TE Annotator☆469Sep 10, 2026Updated 2 weeks ago
- RepeatIdentifier☆75Mar 19, 2025Updated last year
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆302Updated this week
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆814May 31, 2026Updated 3 months ago
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆467Jun 17, 2026Updated 3 months ago
- Chromosome-scale and haplotype-resolved assmebly of tetraploid cultiavetd potato with polyploidy graph binning☆29Aug 14, 2024Updated 2 years ago
- ☆61Mar 14, 2024Updated 2 years ago
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆419Aug 25, 2026Updated last month
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- ☆43Jun 8, 2023Updated 3 years ago
- High-precision TE Annotator☆165Dec 4, 2025Updated 9 months ago
- A genome assembly assessment pipeline.☆39Jun 5, 2026Updated 3 months ago
- Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)☆398Feb 13, 2025Updated last year
- Python library to facilitate genome assembly, annotation, and comparative genomics☆931Sep 19, 2026Updated last week
- ☆88Updated this week
- reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph☆22Jul 26, 2023Updated 3 years ago