Fast and accurate single sample SNV caller

A Calculator for Easy Estimation of Coverage with shRNA, CRISPR, and cDNA libraries

Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.

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

A tool designed to provide preprocessing for FASTQ files. This tool is developed in C++

Archival Compression for hiGh-Throughput sequeNcing data

Official code repository for JAX-CNV

Hybrid method based on a variable-order de bruijn Graph for the error Correction of Long Reads

Method to optimally select samples for validation and resequencing

Ultrafast sequence typing and gene detection from NGS raw reads

Next-Generation Sequencing pipeline in Snakemake and C++.

A tool to index and extract data from gzipped FASTQ files

Rare variant test software for next generation sequencing data

Estimation of per-individual inbreeding tracts under a probabilistic framework

Estimation of pairwise distances under a probabilistic framework

An ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. This tool can be used to detect viral infectious diseases, like COVID-19.

Generate duplex/single consensus reads to reduce sequencing noises and remove duplications

Calculation of pairwise Linkage Disequilibrium (LD) under a probabilistic framework

Scalable long read self-correction and assembly polishing with multiple sequence alignment