Scripts to do haplotype analysis on pan genomes.
☆20Sep 24, 2020Updated 5 years ago
Alternatives and similar repositories for pangenome-haplotypes
Users that are interested in pangenome-haplotypes are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- B73Ab10 genome assembly methods☆16Jan 21, 2022Updated 4 years ago
- This tool performs an automatic identification, annotation, and analysis of the MYB gene family in plants. It can be applied to new trans…☆21Oct 12, 2025Updated 6 months ago
- ☆10Jun 13, 2020Updated 5 years ago
- HiC-Hiker: A probabilistic model to determine contig orientation in chromosome-length scaffolds with Hi-C☆26Jan 14, 2021Updated 5 years ago
- The GitHub repository for the A. thaliana pan-NLR'ome project.☆18Jun 6, 2019Updated 6 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Automated Rice Variant calling workflow for HPC, Cloud and Desktop systems.☆13May 11, 2024Updated last year
- A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline☆27May 24, 2021Updated 4 years ago
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆29Mar 5, 2018Updated 8 years ago
- ☆16Jun 30, 2022Updated 3 years ago
- SINE annotation tool for plant genomes☆19Jan 21, 2024Updated 2 years ago
- Gene model transfer from closely related reference genomes using cDNA alignments☆10Aug 27, 2020Updated 5 years ago
- ☆17Nov 26, 2023Updated 2 years ago
- ☆12Apr 10, 2021Updated 5 years ago
- This is used to achieve haplotype-resolved assembly of tetraploid genomes using gamete sequencings☆12Oct 1, 2021Updated 4 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.
- iTAK☆49Apr 8, 2026Updated last month
- Haplotype aware de novo assembly of diploid genome from long reads☆54Mar 16, 2022Updated 4 years ago
- Code for the Brassica oleracea/rapa/napus genomic comparison☆16Apr 29, 2021Updated 5 years ago
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆17Sep 17, 2025Updated 7 months ago
- Guide through code for a Minimmap2 genome alignment and a seq-seq-pan pan-genome alignment with visualizations in R. The tutorial present…☆19May 16, 2025Updated 11 months ago
- An interactive web portal for exploring SNPs among 1,007 rapeseed germplasm accessions☆14Mar 4, 2025Updated last year
- ☆16Oct 9, 2024Updated last year
- several scripts for bioinformatics☆25Nov 27, 2025Updated 5 months ago
- HiCAT new project☆35May 18, 2025Updated 11 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.
- ☆21Aug 8, 2024Updated last year
- Structural Variant Identification Method using Genome Assemblies☆142Sep 16, 2022Updated 3 years ago
- AlleleFinder is a tool for identifying allele genes from polyploid genome.☆37Dec 21, 2025Updated 4 months ago
- A quick user guide for de novo transposable element (TE) library generation and TE screening. Utilising; the Extensive de novo TE Annotat…☆27Dec 7, 2022Updated 3 years ago
- plot genome alignment synteny☆20May 25, 2020Updated 5 years ago
- De novo annotation of young retrotransposons☆47Apr 24, 2026Updated 2 weeks ago
- ☆11Mar 14, 2026Updated last month
- Neural network classification of TE☆99Apr 3, 2026Updated last month
- Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence informa…☆47Jun 7, 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.
- CATG (Collinearity-based Assembly correcTor GUI) is a tool that can correct genome assembly with collinearity and generate tour files for…☆18Jan 24, 2026Updated 3 months ago
- Some components that speed up and reduce resource cost for original ALLHiC☆15Jun 21, 2025Updated 10 months ago
- ☆15Jan 19, 2022Updated 4 years ago
- ☆44May 8, 2024Updated 2 years ago
- repository for code used in analysis of open wild wheat consortium☆19Nov 23, 2021Updated 4 years ago
- Code to compute the XP-CLR statistic to infer natural selection☆106Jun 13, 2022Updated 3 years ago
- TDNAscan: A Software to Identify Complete and Truncated T-DNA insertions☆20Apr 29, 2026Updated last week