An Example of Subgenome Phasing for Complex Allopolyploidy
☆17Nov 6, 2025Updated 9 months ago
Alternatives and similar repositories for subgenome_phasing_example
Users that are interested in subgenome_phasing_example are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Robust identification of orthologous Synteny with the Orthology Index☆43Aug 22, 2026Updated last week
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated 2 years ago
- A novel genome assembly pipeline based on deep learning☆71Dec 2, 2024Updated last year
- Pipeline for genome scaffolding by modelling distributions of HiC pairs☆12Dec 7, 2022Updated 3 years ago
- A KMER-based genome-wIde Assocation testing approach on polyploids☆68Jul 29, 2026Updated last month
- 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.
- ☆23Aug 8, 2024Updated 2 years ago
- Bayesian gene tree reconciliation and WGD inference using amalgamated likelihood estimation☆16Apr 29, 2025Updated last year
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆16Sep 17, 2025Updated 11 months ago
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆279Aug 10, 2026Updated 3 weeks ago
- Nextflow pipeline for scaffolding genome assemblies with Hi-C reads☆16Nov 5, 2025Updated 9 months ago
- Mabs, a genome assembly tool that optimizes parameters of Hifiasm and Flye☆37Apr 20, 2026Updated 4 months ago
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆172Nov 4, 2025Updated 9 months ago
- Visualing species tree from ASTRAL with gene tree discordance☆34Aug 21, 2026Updated last week
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆76Jun 4, 2026Updated 2 months 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.
- Chromosome-scale and haplotype-resolved assmebly of tetraploid cultiavetd potato with polyploidy graph binning☆29Aug 14, 2024Updated 2 years ago
- ☆16May 7, 2023Updated 3 years ago
- ☆29Jul 16, 2022Updated 4 years ago
- A python package and a set of shell commands to handle GTF files☆52Jan 20, 2026Updated 7 months ago
- C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on 3C-based data (Pore-C, CiFi, Hi-C, Omni-C).☆110Jul 23, 2026Updated last month
- A Rust implementation of sliding window stats over fastas.☆15Jun 4, 2026Updated 2 months ago
- VcfExplorer regroups several programs which principal aims are to map DNA and RNAseq data onto reference genome sequence, perform variant…☆16Apr 15, 2026Updated 4 months ago
- ☆14May 22, 2025Updated last year
- RepeatIdentifier☆75Mar 19, 2025Updated last year
- 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.
- High-precision TE Annotator☆163Dec 4, 2025Updated 8 months ago
- A simple program for evaluate the assembly of a give genome.☆18Mar 3, 2023Updated 3 years ago
- Repository for scripts used in barley pan-genome graph construction with Minigraph☆15Oct 15, 2025Updated 10 months ago
- ☆14Aug 13, 2026Updated 3 weeks ago
- que paquete☆10Jul 17, 2024Updated 2 years ago
- Long Read Based SV Calling Tools Analysis☆14Mar 22, 2024Updated 2 years ago
- Methylatino phasing using PacBio CCS reads☆14Dec 13, 2024Updated last year
- Code for assembly approach presented in "Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspri…☆15Nov 20, 2023Updated 2 years ago
- PhyloForge: Unifying micro and macro evolution with comprehensive genomic signals☆10May 17, 2024Updated 2 years 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.
- A rapid and low-memory multiple-genome aligner for closely related genomes☆25Sep 3, 2025Updated last year
- Bash scripts for analysis of Hyb-Seq data (from raw reads to species trees/networks)☆20Aug 17, 2026Updated 2 weeks ago
- Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…☆37Sep 30, 2024Updated last year
- A tool to extract and annotate genes from raw RNA-seq reads.☆10Dec 20, 2024Updated last year
- PhaseGrass, a reference-based phasing workflow generating chromosome-level haplotype-resolved diploid assembly for highly heterozygous ge…☆17Jun 2, 2026Updated 3 months ago
- An R package to infer and analyze synteny networks from protein sequences☆43Jul 23, 2025Updated last year
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69May 22, 2021Updated 5 years ago