All software
Alpaca
Alpaca (Automated Lightweight Provenance Capture) captures the provenance during the execution of Python scripts that process data and stores the information using a data model based on the the W3C PROV standard.
- FAIR Data
- Information
- metadata
- + 3
- Python
Amazing GitHub Research Repo
This is a showcase of all the amazing features that GitHub offers for your research project
- Data Science
- GitHub Actions
- pandas
- + 3
- (Python)
AMIGOpy
Welcome to AMIGOpy (A Medical Image-based Graphical platfOrm - Python)! This is an evolution of the previously developed MATLAB-based software AMIGOBrachy.
- Treatment Planning and dosimetry
- (C++)
- (CSS)
- ("Inno Setup")
- + 2
AMPBA-workflow
AMPBA is a modular, Snakemake-based pipeline for reproducible amplicon metabarcoding, composable across markers and study designs, and lightweight enough to run independently on hardware from laptops to HPC clusters.
- Python
- Snakemake
- Shell
- + 2
MPI-AMRVAC
MPI-AMRVAC is a parallel adaptive mesh refinement framework aimed at solving (primarily hyperbolic) partial differential equations by a number of different numerical schemes. The emphasis is on (near) conservation laws and on shock-dominated problems in particular.
- (Fortran)
- ("Jupyter Notebook")
- (Makefile)
- + 3
Anatomy Matters
Reproducible analysis code for anatomical tumor–immune archetypes in diffuse large B-cell lymphoma.
- computational pathology
- diffuse large B-cell lymphoma
- jupyter notebooks
- + 4
- ("Jupyter Notebook")
- (PowerShell)
- (Python)
- + 1
anndata
anndata is a Python package for handling annotated data matrices in memory and on disk, positioned between pandas and xarray. anndata offers a broad range of computationally efficient features including, among others, sparse data support, lazy operations, and a PyTorch interface.
- bioinformatics
- data managment
- FAIR Data
- + 1
- Python
Annotation Studio 4
Annotation Studio supports and connects collaborative annotation, source-based composition, and in-depth review in a flexible, web-based environment.
- annotation-tool
- sharing
- JavaScript
- SCSS
- CSS
Annotorious
OpenSeadragon is a JavaScript library that allows users to annotate images. It is available also as OpenSeadragon plugin.
- annotation
- annotation-tool
- data-annotation-tool
- + 3
- TypeScript
- Svelte
- HTML
- + 2
ANNUBeS
ANNUBeS is a deep learning framework meant to generate synthetic data and train on them neural networks aimed at developing and evaluating animals' training protocols in neuroscience.
- neural networks
- Neuroscience
- (Python)
Annular
Annular is a setup for running coupled energy system models with the aim of modeling flexibility scheduling and the policy regulations that affect the behavior of flexibility providers.
- (Julia)
- ("Jupyter Notebook")
- (Python)
Ansible Collection - hifis.toolkit
This collection provides production-ready Ansible roles used for providing services used in research and by research software engineers, but not exclusively. The collection is used to deploy popular Helmholtz Cloud services like the Helmholtz Codebase and its CI infrastructure.
- Jinja