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

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

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

A tool to detect acquired AMR genes directly from long read sequencing data.

SV genotyper for long reads with a variation graph

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

Python package for microsatellite genotyping from highly multiplexed amplicon sequencing data

One-step genotyping software using a long-read sequencer

HBVouroboros automates sequencing-based HBV genotyping and expression profiling

Microsatellite genotyping

Genotyping MUltiplexed-Sequencing of CRISPR-Localized Editing

Benchmarking variant callers for long read data

Project to genotype SNV, INDEL and SV.

A command-line tool to genotype Mycobacterium tuberculosis lineage from a VCF file

Pipelines creating allelic presence-absence matrices from SRST2 and ARIBA results

Establishing genotype-phenotype links using Bulk Segregant Analysis of mutations in Plant populations

This project was written as a first step to apply the ddRADSeq genotyping method to prokaryota. This code is made to dertemine, in silico, the couple of enzymes to apply on a given sequence.