507 Open source projects that are alternatives of or similar to Seqan3

Rapid large-scale prokaryote pan genome analysis

A cool place to store your Hi-C

R package for analyzing single-cell RNA-seq data

Bio4j abstract model and general entry point to the project

Python for Bioinformatics

Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.

Package for fetching metadata and downloading data from SRA/ENA/GEO

Python module for average nucleotide identity analyses

goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary

A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)

A curated list of bioinformatics bench-marking papers and resources.

A Practical and Efficient NCBI Taxonomy Toolkit

A genome browser that shows long reads and complex variants better

SortMeRNA: next-generation sequence filtering and alignment tool

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)

Annotated data.

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Demonstrating best practices for bioinformatics command line tools

Toolset for SV simulation, comparison and filtering

⏱️ Single-header C++11 RDTSCP clock and timing utilities released into the public domain.

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

A DSL for data-driven computational pipelines

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

FastQC port to Qt5: A quality control tool for high throughput sequence data.

MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentation and downloading the program, please see the home page:

Race and ethnicity Imputation from Disease history with Deep LEarning

Lightweight starting point for a modern backbone web app.

Genomics Extension for SQLite

A comprehensive library for computational molecular biology

MOLGENIS - for scientific data: management, exploration, integration and analysis.

Tools for working with genomic and high throughput sequencing data.

Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data

Fast multi-line FASTA/Q reader in several programming languages

A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.

Ten Quick Tips for Deep Learning in Biology

Metadata and website for the Open Bio Ontologies Foundry Ontology Registry

Simple simulation of single-cell RNA sequencing data

Structural variant toolkit for VCFs

A modern and high-performant Swing look-and-feel library

List of tools and resources related to the 10x Genomics GEMCode/Chromium system

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

EDAM is an ontology of bioinformatics types of data including identifiers, data formats, operations and topics.

Deep learning infrastructure for bioinformatics

A modern, highly customizable Start menu for Open-Shell.

Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing

MyGene.info: A BioThings API for gene annotations

The sources of the openSNP website

A fast whole-genome aligner based on de Bruijn graphs

🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results

Provides access to complex Bioinformatics software (even BioLinux!) in just one command.

Material Design Components, Responsive and Modern CSS Framework Built with Flexbox 🍰

Single cell perturbation prediction

karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

GenomeTools genome analysis system.

Trait introspection and concept creator for C++11

Genome assembly evaluation tool

BioGrakn Knowledge Graph

HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.