An accurate and widely applicable pangenome graph-based variant genotyper for diploid and polyploid genomes
☆46Sep 22, 2025Updated 7 months ago
Alternatives and similar repositories for varigraph
Users that are interested in varigraph are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A rapid and accurate ensemble pipeline for graph-based variant genotyping with lower depth of short reads☆49Sep 22, 2025Updated 7 months ago
- A tool for quick and accurate calculation of syntenic diversity.☆43Sep 22, 2025Updated 7 months ago
- A haplotype-resolved and telomere-to-telomere genome assembly pipeline (PHap) tailored for autopolyploids, relying solely on common seque…☆23Jul 29, 2025Updated 9 months ago
- This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…☆37Oct 29, 2025Updated 6 months ago
- Draw a dot plot from a paf alignment☆42Updated this week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Mumemto: multi-MUM and MEM finding across pangenomes☆130Apr 17, 2026Updated last week
- Pangenome-based genome inference☆166Updated this week
- Chromosome-scale and haplotype-resolved assmebly of tetraploid cultiavetd potato with polyploidy graph binning☆28Aug 14, 2024Updated last year
- High-precision TE Annotator☆155Dec 4, 2025Updated 4 months ago
- The complete reference genome for grapevine (Vitis vinifera L.) genetics and breeding☆14Feb 11, 2025Updated last year
- A machine learning-based genotyping tool for structural variation in short reads☆26Sep 15, 2025Updated 7 months ago
- Application of pan-genome for population☆117Oct 26, 2025Updated 6 months ago
- Kmer Analysis of Pileups for Genotyping☆39Mar 6, 2026Updated last month
- Repository for code to produce phased 1000 Genomes Project haplotypes called against the CHM13v2 T2T reference genome.☆16Apr 13, 2026Updated 2 weeks ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- COsine SImilarity-based Genotyper using pangenomes☆32Feb 13, 2026Updated 2 months ago
- Code for Article "A pan-genome of 69 Arabidopsis thaliana accessions reveals a conserved genome structure throughout the global species r…☆24Jun 14, 2024Updated last year
- Constructing a pangenome gene graph☆206Aug 11, 2025Updated 8 months ago
- Genotyping of copy number sensitive allele-specific haplotypes☆28Nov 6, 2025Updated 5 months ago
- an interactive visualization and interpretation framework of reference-projected pangenome graphs☆42Feb 15, 2025Updated last year
- Graph realignment tools for structural variants☆167Dec 8, 2022Updated 3 years ago
- Scripts for Shi et al. (2024). The suer-pangenome of Populus unveils genomic facets for its adaptation and diversification in widespread …☆18Apr 1, 2024Updated 2 years ago
- A list of software for pangenomics☆183Apr 21, 2026Updated last week
- ☆26Apr 22, 2025Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- a precise pangenome browser combining linear and graph-based pan-genome☆13Jul 16, 2024Updated last year
- tomato graph pangenome☆91Dec 13, 2022Updated 3 years ago
- Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).☆108Jul 23, 2024Updated last year
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69May 22, 2021Updated 4 years ago
- Call select base modifications in PacBio HiFi reads☆17Apr 19, 2026Updated last week
- Statistics and analysis for variation graphs☆50Dec 17, 2024Updated last year
- Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions☆36May 14, 2025Updated 11 months ago
- A module for improving the insertion sequences of structural variant calls☆33Jul 14, 2021Updated 4 years ago
- Using Deep Learning to predict gene annotations☆285Mar 6, 2026Updated last month
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Methylation analysis pipeline for genome graph☆15May 25, 2025Updated 11 months ago
- scripts for the project of seven thaliana genomes assembly☆42May 22, 2021Updated 4 years ago
- GWAS software that can handle autopolyploids☆33Oct 14, 2025Updated 6 months ago
- Modular Genome Assembly, Annotation and Assessment Pipeline☆21Mar 16, 2026Updated last month
- General purpose utility related to GAF files☆29Updated this week
- Characterization of Structural Variation in Chinese samples☆18Dec 22, 2021Updated 4 years ago
- Jasmine: SV Merging Across Samples☆250Dec 20, 2024Updated last year