Bioengineering
MONAI is the domain-specific, open-source Medical AI framework that drives research breakthroughs and accelerates AI into clinical impact.
A PyTorch-based framework for building, training, and deploying deep-learning models for healthcare imaging.
Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biomedical research.
A web-based platform for running reproducible genomics and biomedical data-analysis workflows without requiring programming experience.
Biopython is a set of freely available tools for biological computation written in Python by an international team of developers.
A Python library for biological computation, sequence analysis, bioinformatics file parsing, and access to online biological databases.
The Insight Toolkit (ITK) is an open-source, cross-platform toolkit for N-dimensional scientific image processing, segmentation, and registration.
A C++ toolkit with Python wrapping for N-dimensional image processing, segmentation, and registration in medical and scientific imaging.
Tools (written in C using htslib) for manipulating next-generation sequencing data
A foundational command-line toolkit for manipulating, analyzing, and converting SAM, BAM, and CRAM sequencing alignments.
A software application for visualization and analysis of medical image computing data sets.
A free, open-source platform for visualizing, segmenting, registering, and analyzing medical images and 3D models.
Proteomics search & quantification so fast that it feels easy
A high-performance proteomics search and quantification engine for peptide identification from tandem mass spectra.
OpenMS is an open-source software C++ library for LC-MS data management and analyses.
An open-source C++ and Python platform for LC-MS/MS proteomics and metabolomics data processing, quantification, and workflow development.
Pyteomics is a collection of lightweight and handy tools for Python that help to handle various sorts of proteomics data.
A Python toolkit for parsing and manipulating proteomics and mass-spectrometry data formats and identifiers.