There are 3 repositories under snp topic.
R package: parallel computing toolset for relatedness and principal component analysis of SNP data (Development version only)
gwasrapidd: an R package to query, download and wrangle GWAS Catalog data
Multi-Architecture UEFI Environment Driver
Data management of large-scale whole-genome sequence variant calls (Development version only)
A set of scripts for calculating pairwise SNP distance
A tool for simulating random mutations in any genome
This python script detects known traits in raw human genetic data.
Lightweight single-html-file-based Genome Segments playground for Visualize genome features cluster(gene arrow map or other features), add synteny among genome fragments or add crosslink among features, add short(PE/MP)/long reads(pacbio or nanopore) mapping or snpindel in vcf(not support complex sv yet), support all CIGAR of sam alignment, directly modify almost all features in Chrome by click the feature
SNPbinner is a utility for the generation of genotype crossover points and binmaps based on SNP data across recombinant inbred lines.
R package – HLA Genotype Imputation with Attribute Bagging (development version only)
S&P 500 stock price prediction using Transformer model
An interactive graphical illustration of genetic associations and their biological context
A comprehensive database for efficient retrieve and analysis of SNPs among 1210 maize lines
Tools for analyzing raw DNA test data files. Shows Y chromosome and mitochondrial mtDNA haplogroups. LGPLv3 - use freely but share improvements.
Suit of R-scripts to perform landscape genomic analyses
Pstrain profiles strains in metagenomics data. It infers strain abundance and genotype for each species. Also, it has a single species mode; where given a BAM and VCF, it can phase the variants for any species.
SNP abundance correlates with network degree
The DKFZ-ODCF, formerly DKFZ/eilslabs SNV-Calling Workflow
Fast manhattenplots using ggplot2
Multi-bAse Codon-Associated variant Re-annotatiON (MACARON)
Functions to analyse UK Biobank genetic data directly from DNA Nexus' RStudio Workbench
Collecting Genotypes from ENA and make their SNPs
Count common and unique SNPs among several populations from a VCF format file.
A QC pipeline for SVs calls based on coverage and SNP calls
Tool for genome wide association studies with Bayesian inference and statistical learning
Mbovpan is a nextflow bioinformatic pipeline for Mycobacterium bovis pangenome analysis. The goal of Mbovpan is to help researchers to study the M. bovis pangenome in an automatic and easy way.