Plant genome assembly and annotation pipeline using snakemake
☆55May 14, 2025Updated last year
Alternatives and similar repositories for assembly-annotation-pipeline
Users that are interested in assembly-annotation-pipeline are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…☆40Oct 29, 2025Updated 9 months ago
- This is a workflow that combines multiple software, mainly for whole genome annotation of eukaryotes.☆32Apr 2, 2026Updated 3 months ago
- Whole Genome Annotation Pipeline☆16Jun 20, 2025Updated last year
- Chromosome-scale and haplotype-resolved assmebly of tetraploid cultiavetd potato with polyploidy graph binning☆29Aug 14, 2024Updated last year
- This is a method to find telomeres and centromeres in plants.☆43Jun 17, 2023Updated 3 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.
- ☆33Jan 3, 2025Updated last year
- ☆41Jun 8, 2023Updated 3 years ago
- I often use some of the self-written programs.☆16Jun 12, 2026Updated last month
- my commonly used perl script☆20Aug 28, 2020Updated 5 years ago
- zgtools: A pipeline that allows for the convenient acquisition of T2T (Telomere-to-Telomere) genomes.☆17Jul 17, 2026Updated last week
- Code for Article "A pan-genome of 69 Arabidopsis thaliana accessions reveals a conserved genome structure throughout the global species r…☆24Jun 14, 2024Updated 2 years ago
- ☆19May 10, 2023Updated 3 years ago
- Set of script for the paper on the cattle graph genome☆14Jan 10, 2023Updated 3 years ago
- Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation☆205Apr 27, 2026Updated 3 months ago
- 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.
- This is the standalone version of the EviAnn pipeline☆176Jun 24, 2026Updated last month
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆77Jun 4, 2026Updated last month
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆167Nov 4, 2025Updated 8 months ago
- An ultra-fast and efficient genomic tool for coverage calculation☆173Jun 9, 2026Updated last month
- Convert Tandem Repeat Finder dat file output into gff3 format☆32Nov 9, 2025Updated 8 months ago
- ☆12Jun 12, 2023Updated 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 complete telomere-to-telomere assembly of sheep: T2T-sheep1.0☆21Nov 2, 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
- 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.
- Main scripts and commands used to analyze goat population genetic and domestication☆19Mar 25, 2019Updated 7 years ago
- Here, we report telomere-to-telomere (T2T) gap-free genomes for domesticated pepper Capsicum annuum and wild relative Capsicum rhomboideu…☆13Feb 18, 2024Updated 2 years ago
- Any Way to Show Multi genomic Synteny☆231Jul 4, 2025Updated last year
- MYB transcription factors are one of the largest gene family in plants and control many processes. This repository provides additional ba…☆12Feb 26, 2026Updated 5 months ago
- The Vertebrate Genomes Project Mitogenome Assembly Pipeline☆19Mar 26, 2023Updated 3 years ago
- ☆10Jun 13, 2020Updated 6 years ago
- Long Read Based SV Calling Tools Analysis☆14Mar 22, 2024Updated 2 years ago
- convert variation graph alignments to coverage maps over nodes☆27Jan 21, 2026Updated 6 months ago
- Genome annotation pipeline☆66Jun 25, 2024Updated 2 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Code repository for the T2T-Y paper☆24Jul 11, 2023Updated 3 years ago
- ☆88Jul 12, 2024Updated 2 years ago
- a fork of the gap-closing pipeline PBJelly☆15Jan 7, 2019Updated 7 years ago
- Evaluation and polishing workflows for T2T genome assemblies☆160Jun 26, 2026Updated last month
- ☆26Jun 27, 2026Updated last month
- Code associated with the manuscript "A complete reference genome improves analysis of human genetic variation".☆17Jan 17, 2023Updated 3 years ago
- Structure variants calling and genotyping scripts for pan-Zea☆23Nov 17, 2022Updated 3 years ago