:scissors: :zap: Rapid haploid variant calling and core genome alignment

Strelka2 germline and somatic small variant caller

Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

tools for analyzing and exploring genetic relationships

An Open Source Web Application for Genetic Data (SNPs) using 23AndMe and Data Crawling Technologies

A fast 23andMe DNA parser and inferrer for Python

tools for reading, writing, generating, merging, and remapping SNPs

Find causal cell-types underlying complex trait genetics

A fast 23andMe genome text file parser, now superseded by arv

Wrapper to a number of SNP web APIs

Population Genetics in Julia

Compressed storage for SNP data

Pan-genomic sequence analysis

Datastructures and algorithms for working with genetic variation

A tool for simulating random mutations in any genome

Estimate local SNP heritability and genetic covariance from GWAS summary association statistics.

An Efficient Swiss Army Knife for Population Genomic Analyses in R

An R package for fast and efficient visualizing of GWAS results using Q-Q and Manhattan plots directly from PLINK output files.

Basic and fast GWAS functions for QQ and Manhattan plots (incl. gene names)

A haplotype analysis toolkit for natural variation study.

:bookmark: Get SNP proxies from the 1000 Genomes Project.

Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model

strataG is a toolkit for haploid sequence and multilocus genetic data summaries, and analyses of population structure.

Collection of Python scripts for parsing/analyses of RAD-seq data

vSNP -- validate SNPs

Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.

BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons :microbe:

An Open Source Web Application for Genetic Data (SNPs) Data Crawling

A suite of bioinformatics data processing and analysis pipelines, software, and training resources for common methods.