C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings

Graph realignment tools for structural variants

Efficient genotyping bi-allelic SNPs on single cells

💾 📃 "Reads to report" for public health and clinical microbiology

A method for variant graph genotyping based on exact alignment of k-mers

Pileup biallelic SNPs from single-cell and bulk RNA-seq data

A method for circular DNA detection based on probabilistic mapping of ultrashort reads

Toolkit for VNTR genotyping and repeat-pan genome graph construction

Kmer Analysis of Pileups for Genotyping

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

Bayesian non-parametric clustering (BnpC) of binary data with missing values and uneven error rates

Genotyping of segregating mobile elements insertions

Polyploid micro-haplotype assembly using Markov chain Monte Carlo simulation.

Python library for simple and complex indels.

SV genotyper for long reads with a variation graph

An efficient genetic data imputation pipeline

emm Automatic Isolate Labeller

genotyping by Mapping-free ALternate-allele detection of known VAriants

A simple python library to identify the most likely strain from the population