This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato breeding“
☆41Oct 17, 2026Updated 2 weeks ago
Alternatives and similar repositories for Haplotype-diversity
Users that are interested in Haplotype-diversity are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- This is a workflow that combines multiple software, mainly for whole genome annotation of eukaryotes.☆32Apr 2, 2026Updated 7 months ago
- Genome haplotype assembly and assessment method☆12Nov 24, 2023Updated 2 years ago
- Dynamic Elongation of a Genome Assembly Path☆32Oct 26, 2026Updated last week
- ☆23Aug 21, 2026Updated 2 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- ☆17Jul 29, 2023Updated 3 years ago
- ☆21Dec 13, 2024Updated last year
- Construct and Analyze the North American Vitis pangenome☆29Aug 19, 2025Updated last year
- ☆34Apr 7, 2025Updated last year
- ☆30Oct 20, 2023Updated 3 years ago
- Study of TE evolution in a population of genomes☆12Dec 11, 2023Updated 2 years ago
- Application of pan-genome for population☆123Oct 26, 2025Updated last year
- An accurate and widely applicable pangenome graph-based variant genotyper for diploid and polyploid genomes☆50Sep 22, 2025Updated last year
- a fork of the gap-closing pipeline PBJelly☆15Jan 7, 2019Updated 7 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- ☆27Jun 27, 2026Updated 4 months ago
- Plant genome assembly and annotation pipeline using snakemake☆55May 14, 2025Updated last year
- tomato graph pangenome☆95Dec 13, 2022Updated 3 years ago
- Detecting transposable element invasions without repeat library. Detects also horizontal transfer events and endogenized viruses. All you…☆17Nov 25, 2024Updated last year
- Statistics and analysis for variation graphs☆57Dec 17, 2024Updated last year
- Everything but the kitchen sink☆13Feb 6, 2025Updated last year
- High-precision TE Annotator☆168Dec 4, 2025Updated 11 months ago
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated last year
- Panacus is a tool for computing statistics for GFA-formatted pangenome graphs☆141Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- an interactive visualization and interpretation framework of reference-projected pangenome graphs☆42Feb 15, 2025Updated last year
- ☆15Jan 19, 2022Updated 4 years ago
- ☆19Aug 6, 2025Updated last year
- a gap-filling tools of genome in complex region.☆28Dec 30, 2025Updated 10 months ago
- ☆29May 12, 2026Updated 5 months ago
- a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).☆20Dec 5, 2023Updated 2 years ago
- Code for Article "A pan-genome of 69 Arabidopsis thaliana accessions reveals a conserved genome structure throughout the global species r…☆25Jun 14, 2024Updated 2 years ago
- Mumemto: multi-MUM and MEM finding across pangenomes☆140Updated this week
- The IntroBlocker ancestry inference algorithm☆18Oct 24, 2023Updated 3 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Integrate multiple genome assemblies into a pangenome graph☆37Jun 9, 2022Updated 4 years ago
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆288Aug 10, 2026Updated 2 months ago
- Pan-genome Construction and Population Structure Variation Calling pipeline☆46Sep 13, 2024Updated 2 years ago
- A tool for quick and accurate calculation of syntenic diversity.☆46Sep 22, 2025Updated last year
- Fast and flexible inference of the distribution of fitness effects (DFE).☆16Oct 21, 2026Updated 2 weeks ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆37Jun 12, 2025Updated last year
- ☆32Oct 7, 2026Updated 3 weeks ago