Fast EM algorithm for a Probabilistic PCA model for Genotype data
☆21Jan 14, 2022Updated 4 years ago
Alternatives and similar repositories for ProPCA
Users that are interested in ProPCA are comparing it to the libraries listed below
Sorting:
- Scalable population structure inference☆18Oct 22, 2022Updated 3 years ago
- A flexible tool for the multi-resolution localization of causal variants across the genome, accounting for population structure.☆16Jul 7, 2022Updated 3 years ago
- A tutorial for running Tractor and Tractor-Mix on toy datasets, including step-by-step instructions for preparing data, estimating PCs an…☆11Dec 22, 2025Updated 2 months ago
- ☆13Aug 18, 2023Updated 2 years ago
- R package to estimate kinship and FST from SNP data☆21Jan 27, 2026Updated last month
- LDkit: a parallel computing toolkit for linkage disequilibrium analysis☆19Sep 4, 2020Updated 5 years ago
- ☆27Mar 13, 2026Updated last week
- ☆12Feb 16, 2025Updated last year
- ldshrink: a one-stop R package for shrinkage estimation of linkage disequilibrium☆13Mar 31, 2021Updated 4 years ago
- your friendly pangenome graph genotyper☆10Feb 6, 2023Updated 3 years ago
- OpenMendel package for haplotyping and imputation☆25Oct 8, 2025Updated 5 months ago
- MegaSSR is a robust online server that identifies Simple Sequence Repeats (SSR) and enables the design of SSR markers in high-throughput …☆11Nov 25, 2024Updated last year
- Genome-wide association studies (GWAS) for ordered categorical phenotypes☆23Updated this week
- CoalHMM☆22Nov 4, 2013Updated 12 years ago
- Lightweight resources assembly algorithm☆19May 17, 2017Updated 8 years ago
- Binaries for tools used in genetics in an R package☆12Apr 7, 2025Updated 11 months ago
- A script to re-color a FigTree saved Nexus file☆13Jan 29, 2017Updated 9 years ago
- TEFLoN uses paired-end illumina sequence data to discover and genotype transposable elements present in your samples.☆13Mar 5, 2021Updated 5 years ago
- Implemention of Accurate estimation of SNP-heritability from biobank-scale data irrespective of genetic architecture. (Nature Genetics 20…☆15Sep 5, 2019Updated 6 years ago
- Convert bioinformatics file formats to Zarr☆45Mar 2, 2026Updated 2 weeks ago
- Next Generation Genomic Prediction Tools☆10Mar 13, 2026Updated last week
- Calculates the probability of a haplotype given a population reference panel☆12Dec 9, 2024Updated last year
- Time-stratified f-statistics☆15Aug 1, 2025Updated 7 months ago
- A pipeline that accepts a VCF file to run through Admixture☆64Jan 2, 2025Updated last year
- PSMC-based Migration and Split Time Inference (MiSTI) from two genomes☆11Updated this week
- scDataset: Scalable Data Loading for Deep Learning on Large-Scale Single-Cell Omics☆43Jan 30, 2026Updated last month
- population genetic simulations with R and Shiny☆28Nov 3, 2024Updated last year
- tools to efficiently retrieve and calculate LD☆33Sep 3, 2021Updated 4 years ago
- An efficient tool for cross-population fixation index estimation on variant call format files☆11Mar 1, 2026Updated 3 weeks ago
- An R package to help in plotting PCA results nicely.☆12Jan 16, 2020Updated 6 years ago
- RSS: Regression with Summary Statistics☆51Sep 16, 2024Updated last year
- An educational castle defence game made for The Odin Project's Game Jam.☆11Jun 30, 2022Updated 3 years ago
- AlignerBoost is a generalized software toolkit for boosting Next-Gen sequencing mapping precision using a Bayesian based mapping quality …☆11Mar 1, 2022Updated 4 years ago
- Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding☆20Mar 3, 2025Updated last year
- A crate for working with genomics chain files.☆12Aug 6, 2025Updated 7 months ago
- pangenome analyses for complete genomes of great apes (and gibbon)☆20Oct 12, 2024Updated last year
- STITCH - Sequencing To Imputation Through Constructing Haplotypes☆86Jan 19, 2026Updated 2 months ago
- Automated and Distributed Population Genetic Model Inference from Allele Frequency Spectra☆18Mar 4, 2026Updated 2 weeks ago
- EM-PCA for Ultra-low Coverage Sequencing Data☆18Dec 18, 2025Updated 3 months ago