442 Open source projects that are alternatives of or similar to BridgeDb

Rust implementation of CryptoURI: URN-like namespace for cryptographic objects with Bech32-based encoding

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

Strelka2 germline and somatic small variant caller

Annotated data.

Computational Analysis of Novel Drug Opportunities

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

Quickly search, compare, and analyze genomic and metagenomic data sets.

Syntax highlighting for computational biology

A type to represent, query, and manipulate a Uniform Resource Identifier.

The sources of the openSNP website

Examples of using deep learning in Bioinformatics

Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing

A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment

Next generation sequencing reads de novo assembler.

Analytical Web Apps for Python, R, Julia, and Jupyter. No JavaScript Required.

R package for analyzing single-cell RNA-seq data

Support for Competitive Coding badges to add in Github readme or portfolio websites.

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

🔬 Assemble large genomes using short reads

parallel fastq-dump wrapper

The Ensembl Compara Perl API and SQL schema

Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

React component for Cytoscape.js network visualisations

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

The ultimate Sublime Text plugin for opening URIs (URLs) in your file.

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:

A curated list of resources for learning bioinformatics.

nim wrapper for htslib for parsing genomics data files

GNparser normalises scientific names and extracts their semantic elements.

Simple simulation of single-cell RNA sequencing data

Proof-of-concept seq-to-graph mapper and graph generator

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

A web interface for FreeRADIUS with a MySQL backend. Fast and painless configuration with Docker.

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

Intuitive local web frontend for the BLAST bioinformatics tool

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

A simple command-line tool to download data from Joint Genome Institute databases

Single cell perturbation prediction

Python package for graph neural networks in chemistry and biology

Application for making ENCODE Blacklists

Structural variation caller using third generation sequencing

dna2vec: Consistent vector representations of variable-length k-mers

RAxML Next Generation: faster, easier-to-use and more flexible

APBS - software for biomolecular electrostatics and solvation

Toolkit for preparing genomes for submission to NCBI

An efficient FASTQ manipulation suite

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

UGENE is free open-source cross-platform bioinformatics software

Dash for Julia - A Julia interface to the Dash ecosystem for creating analytic web applications in Julia. No JavaScript required.

Benchmarking programming languages/implementations for common tasks in Bioinformatics

A genome browser that shows long reads and complex variants better

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

a parser and a builder to work with URI query string the right way in PHP

Deep learning infrastructure for bioinformatics

A permissively licensed library designed to replace Illumina's Experiment Manager

Genomics using open source tools, running on GCP or AWS

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

A lightweight and simple Kotlin library for deep link handling on Android 🔗.

Official git repository for Biopython (originally converted from CVS)

Ten Quick Tips for Deep Learning in Biology