Genome Association Predict Integrate Tools
☆220Dec 3, 2025Updated 3 months ago
Alternatives and similar repositories for GAPIT
Users that are interested in GAPIT are comparing it to the libraries listed below
Sorting:
- A Memory-efficient, Visualization-enhanced, and Parallel-accelerated Tool For Genome-Wide Association Study☆317Sep 20, 2025Updated 5 months ago
- BLINK: A Package for Next Level of Genome Wide Association Studies with Both Individuals and Markers in Millions☆39Mar 24, 2025Updated 11 months ago
- The R tool associated with 3VmrMLM, a comprehensive GWAS method for identifying QTNs, QTN-by-environment interactions, and QTN-by-QTN int…☆34Dec 29, 2025Updated 2 months ago
- Perform GWAS using the FarmCPU model.☆24Dec 14, 2024Updated last year
- LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files☆206Jul 5, 2025Updated 8 months ago
- ☆17Nov 26, 2023Updated 2 years ago
- A library for running k-mers based GWAS☆125Oct 29, 2024Updated last year
- ☆11Dec 15, 2025Updated 2 months ago
- Genome-wide Efficient Mixed Model Association☆391Dec 10, 2025Updated 2 months ago
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆203Aug 15, 2024Updated last year
- VCF2Dis: A new simple and efficient software to calculate p-distance matrix and construct population phylogeny based Variant Call Forma…☆103Aug 27, 2025Updated 6 months ago
- ☆20Sep 6, 2024Updated last year
- Perform GWAS with gemma in a simple pipeline☆27Apr 26, 2025Updated 10 months ago
- blupADC:An useful tool for animal and plant breeding☆32Nov 22, 2024Updated last year
- Code to compute the XP-CLR statistic to infer natural selection☆102Jun 13, 2022Updated 3 years ago
- 📊 Circular and Rectangular Manhattan Plot☆623Feb 25, 2026Updated last week
- A haplotype analysis toolkit for natural variation study.☆31Oct 3, 2023Updated 2 years ago
- ☆15Mar 7, 2025Updated 11 months ago
- SNPbinner is a utility for the generation of genotype crossover points and binmaps based on SNP data across recombinant inbred lines.☆39Apr 5, 2019Updated 6 years ago
- QTL-seq pipeline to identify causative mutations responsible for a phenotype☆63Jan 31, 2025Updated last year
- ☆31Apr 7, 2025Updated 10 months ago
- Scripts to convert between file formats for various analyses☆16May 10, 2025Updated 9 months ago
- Heritability in plant breeding - R and SAS code examples☆40Feb 27, 2021Updated 5 years ago
- Automated Rice Variant calling workflow for HPC, Cloud and Desktop systems.☆13May 11, 2024Updated last year
- RegCloser is a genome gap-closing tool based on the robust regression approach, which is conceptually applicable to de novo assembly of N…☆15Apr 22, 2024Updated last year
- Application of pan-genome for population☆116Oct 26, 2025Updated 4 months ago
- R front-end for TASSEL 5☆33Feb 26, 2026Updated last week
- ☆23Oct 30, 2022Updated 3 years ago
- ☆21Nov 15, 2024Updated last year
- SINE annotation tool for plant genomes☆18Jan 21, 2024Updated 2 years ago
- “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau☆19Jul 13, 2020Updated 5 years ago
- iPat allows you to perform GWAS and GS with drags and clicks!☆11Jul 12, 2022Updated 3 years ago
- A rapid and accurate ensemble pipeline for graph-based variant genotyping with lower depth of short reads☆49Sep 22, 2025Updated 5 months ago
- Scripts to do haplotype analysis on pan genomes.☆20Sep 24, 2020Updated 5 years ago
- Structure variants calling and genotyping scripts for pan-Zea☆22Nov 17, 2022Updated 3 years ago
- Detailed bioinformatics scripts and methods used in the NAM genome paper.☆91Jan 14, 2025Updated last year
- Synteny and Rearrangement Identifier☆448Apr 29, 2025Updated 10 months ago
- ☆22Aug 22, 2019Updated 6 years ago
- ☆114Oct 3, 2025Updated 5 months ago