snp

zhengxwen/SNPRelate

R package: parallel computing toolset for relatedness and principal component analysis of SNP data (Development version only)

ramiromagno/gwasrapidd

gwasrapidd: an R package to query, download and wrangle GWAS Catalog data

intel/MultiArchUefiPkg

Multi-Architecture UEFI Environment Driver

zhengxwen/SeqArray

Data management of large-scale whole-genome sequence variant calls (Development version only)

gtonkinhill/pairsnp

A set of scripts for calculating pairwise SNP distance

CDCgov/mycosnp-nf

CDCgov/mycosnp-nf

mkpython3/Mutation-Simulator

A tool for simulating random mutations in any genome

solgenomics/SNPbinner

SNPbinner is a utility for the generation of genotype crossover points and binmaps based on SNP data across recombinant inbred lines.

MichaelSebero/Genetic-Trait-Detector

This python script detects known traits in raw human genetic data.

orangeSi/GSSplayground

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

zhengxwen/HIBAG

R package – HLA Genotype Imputation with Attribute Bagging (development version only)

JiscaH/sequoia

R package for pedigree inference based on SNP data

mltrev23/snp500_stock_prediction

S&P 500 stock price prediction using Transformer model

USDA-VS/vSNP

vSNP -- validate SNPs

mbhall88/psdm

Compute a pairwise SNP distance matrix from one or two alignment(s)

oncogenetics/LocusExplorer

An interactive graphical illustration of genetic associations and their biological context

YaoLab-Bioinfo/MaizeSNPDB

A comprehensive database for efficient retrieve and analysis of SNPs among 1210 maize lines

alinja/snipsa

Tools for analyzing raw DNA test data files. Shows Y chromosome and mitochondrial mtDNA haplogroups. LGPLv3 - use freely but share improvements.

rojaff/LanGen_pipeline

Suit of R-scripts to perform landscape genomic analyses

ipw012/RIVER

R package for RIVER (RNA-Informed Variant Effect on Regulation)

roman-tremmel/ggfastman

Fast manhattenplots using ggplot2

wacguy/Simple

wshuai294/PStrain

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.

dhimmel/snplentiful

SNP abundance correlates with network degree

DKFZ-ODCF/SNVCallingWorkflow

The DKFZ-ODCF, formerly DKFZ/eilslabs SNV-Calling Workflow

waqasuddinkhan/MACARON-GenMed-LabEx

Multi-bAse Codon-Associated variant Re-annotatiON (MACARON)

Endika/genome_report

Your genome report

hdg204/Rdna-nexus

Functions to analyse UK Biobank genetic data directly from DNA Nexus' RStudio Workbench

AmirHoseinSafari/Genotype-collector-and-SNP-dataset-creator

Collecting Genotypes from ENA and make their SNPs

chadlaing/feht

Predictive marker discovery for groups; binary data, genomic data (single nucleotide variants), arbitrary character data.

deepgrace/snp

Structured Network Programming with Sender / Receiver in Modern C++♦️

JingfangSI/SnpCountCU

Count common and unique SNPs among several populations from a VCF format file.

NCBI-Hackathons/ScrubSV

A QC pipeline for SVs calls based on coverage and SNP calls

snaketron/genphen

Tool for genome wide association studies with Bayesian inference and statistical learning

salvadorlab/mbovpan

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.