Code for assembly approach presented in "Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspring data"
☆15Nov 20, 2023Updated 2 years ago
Alternatives and similar repositories for polyploid-potato-assembly
Users that are interested in polyploid-potato-assembly are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Scripts used to perform analyses in Rice et al. (2023)☆16Dec 28, 2023Updated 2 years ago
- Set of script for the paper on the cattle graph genome☆14Jan 10, 2023Updated 3 years ago
- ☆12May 23, 2024Updated 2 years ago
- ☆19Aug 6, 2025Updated last year
- Construct and Analyze the North American Vitis pangenome☆29Aug 19, 2025Updated last year
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- ☆15May 3, 2023Updated 3 years ago
- ☆10Jan 27, 2025Updated last year
- Location of structural errors in a genome assembly and structural variations between a pair of genomes☆11Sep 27, 2019Updated 7 years ago
- reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph☆23Jul 26, 2023Updated 3 years ago
- De novo chromosome-level scaffolding and phasing tool using Hi-C☆30Updated this week
- Ploidy agnostic phasing pipeline and algorithm☆51Jan 3, 2024Updated 2 years ago
- A web-based, interactive pangenome visualization tool☆21Apr 10, 2023Updated 3 years ago
- Unzip assembly graphs with Hi-C data and/or long reads.☆29May 7, 2026Updated 6 months ago
- R package to draw syntenic plots in 3 different styles☆47Feb 2, 2026Updated 9 months ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- 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
- Linkage Disequilibrium Shrinkage Estimation for Polyploids☆13Sep 9, 2026Updated last month
- This is used to achieve haplotype-resolved assembly of tetraploid genomes using gamete sequencings☆15Oct 1, 2021Updated 5 years ago
- General purpose utility related to GAF files☆38Aug 6, 2026Updated 3 months ago
- ☆27Jun 27, 2026Updated 4 months ago
- a fork of the gap-closing pipeline PBJelly☆15Jan 7, 2019Updated 7 years ago
- Chromosome-scale and haplotype-resolved assmebly of tetraploid cultiavetd potato with polyploidy graph binning☆28Aug 14, 2024Updated 2 years ago
- PPL (Pore-C PipLine) is a set of tools to process, evaluate and visualize the multi-way contacts experiment based on 3C and ONT long read…☆16Apr 22, 2025Updated last year
- Reduction of Althaps and Duplicate Contigs for Improved Downstream Analysis☆21Oct 2, 2026Updated last month
- 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.
- Genetic maps in autopolyploids☆33Jan 12, 2026Updated 9 months ago
- ☆46Apr 18, 2026Updated 6 months ago
- The IntroBlocker ancestry inference algorithm☆18Oct 24, 2023Updated 3 years ago
- A tool to annotate inversions from pangenome graph bubbles.☆11Jun 26, 2026Updated 4 months ago
- an interactive visualization and interpretation framework of reference-projected pangenome graphs☆42Feb 15, 2025Updated last year
- SINE annotation tool for plant genomes☆19Jan 21, 2024Updated 2 years ago
- Creates an N-chart for comparing assembly lengths, including script for counting assembly lengths from a fasta file☆13Feb 2, 2017Updated 9 years ago
- ☆12Sep 1, 2022Updated 4 years ago
- Detailed bioinformatics scripts and methods used in the Maize-Pan-genome paper.☆17Oct 8, 2025Updated last year
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Grapevine pangenome facilitates trait genetics and genomic breeding☆10May 8, 2024Updated 2 years ago
- An ultra-fast gzip file tools☆29Jun 23, 2026Updated 4 months ago
- A tool for pangenome graph-based phased diploid genome inference.☆10Updated this week
- GWAS software that can handle autopolyploids☆36Sep 21, 2026Updated last month
- PedigreeSim is software that generates simulated genetic marker data of individuals in pedigreed populations. A population can consist of…☆15Apr 13, 2021Updated 5 years ago
- A pipeline for assemble chroloplast genome using short/long reads☆12Mar 31, 2022Updated 4 years ago
- Utilities to manipulate pangenome collections using multi-MUMs☆20Updated this week