Find open-source science resources
A directory of tools, AI models, datasets, and research resources for biotech, bioinformatics, and other scientific fields. Aggregated from curated GitHub awesome-lists, HuggingFace, bio.tools, Bioconductor, and more.
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20 of 6,223 resources
Open-source bioimage analysis platform for digital pathology and research, featuring AI-powered cell detection, tissue classification, and whole-slide image analysis with extensible scripting and plugin architecture (1.3K+ stars, actively maintained)
Open-source PDF parser for AI-ready data, converting PDFs into Markdown/JSON/HTML/Tagged PDF with layout analysis and reading-order detection; ranks #1 overall on extraction benchmarks with deterministic bounding boxes and hybrid AI mode (26K+ stars, Apache 2.0)
Machine learning software for extracting structured metadata from scholarly documents
A quality control tool for high throughput sequence data.
Java-based browser. Fast, efficient, scalable visualization tool for genomics data and annotations. Handles a large variety of formats.
Concatenation software for the fast assembly of multi-gene datasets with character set and codon information.
Java framework for processing biological data.
Chemical 2D structure editor application/applet based on the [Chemistry Development Kit](https://sourceforge.net/projects/cdk/).
Genetic variant annotation and effect prediction toolbox.
GRIDSS: the Genomic Rearrangement IDentification Software Suite.
Parse scientific papers to structured fields (title/author/sections/references)
Customizable pipeline for differential expression analysis with an intuitive GUI.
Workflow standard developed by the Broad.
Hadoop Oozie-based workflow system focused on genomics data analysis in cloud environments.
Natural Product-likeness calculator v-2.1 : calculates natural product-likeness of small molecules based on open-data of natural products.
VIP is a web portal for medical imaging applications. It allows users to access scientific applications as a service (directly through the web browser with no installation required), as well as distributed computing resources in a transparent manner. It exploits the resources available in the biomed virtual organization of the EGI e-infrastructure to offer an open service to researchers worldwide.
The MetaProteomeAnalyzer Cloud (MPA Cloud) is an intuitive, open-source tool for metaproteomics data analysis and interpretation, designed to analyse comprehensive metaproteomics data from tandem mass spectrometry experiments through a web interface.