508 Open source projects that are alternatives of or similar to STing

Collection of scripts for bacterial genomics

A package for designing compact and comprehensive capture probe sets.

Official code repository for GATK versions 4 and up

A Java API for high-throughput sequencing data (HTS) formats.

Data intensive science for everyone.

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

Clustering scRNAseq by genotypes

Tools to process and analyze deep sequencing data.

Analysis pipelines for sequencing data

is an open-source LIMS (laboratory Information Management System) for Next Generation Sequencing sample management, statistics and reports, and bioinformatics analysis service management.

ABRA2

Bioinformatics workflows developed for and used on the St. Jude Cloud project.

Numerical Encoding for Human Genetic Variants

UGENE is free open-source cross-platform bioinformatics software

De novo genome assembly and multisample variant calling

A curated list of awesome bioinformatics software.

A Go package for engineering organisms.

Utilities for analyzing next generation sequencing data.

Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling

Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.

Predict plasmids from uncorrected long read data

Efficient pythonic random access to fasta subsequences

A fast 23andMe genome text file parser, now superseded by arv

Java utilities for Bioinformatics

Python and C++ code for reading and writing genomics data.

A library for manipulating bioinformatics sequencing formats in Apache Spark

A collection of scripts and notes related to genomics and bioinformatics

NGLess: NGS with less work

Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

A package for designing activity-informed nucleic acid diagnostics for viruses.

R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

Fast k-mer based tool for multi locus sequence typing (MLST)

🐳 Bio-dockers: dockerized bioinformatic tools

tools for working with genome variation graphs

Official git repository for Biopython (originally converted from CVS)

programs and scripts, mainly python, for analyses related to nucleic or protein sequences

DriverPower

A fast 23andMe DNA parser and inferrer for Python

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

Metagenomic pipeline and other general scripts used in the lab.

Consensus calling (or "reference assisted assembly"), chiefly of ancient mitochondria

A Snakemake workflow to process single samples or cohorts of paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.

Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

master master & master slave replication in mysql

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

AmiGO is the public interface for the Gene Ontology.

CUT&RUN and CUT&Tag data processing and analysis

DISCOVER co-occurrence and mutual exclusivity analysis for cancer genomics data

CPM implementation in pure JavaScript

mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data

Keep your Mongoose Schemas synced with MeiliSearch

simple viewer for variant call format using htslib

An automated RNA-seq pipeline using Nextflow

a pileup library that embraces the huge

My bioinfo toolbox

Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets