All software
spec2vec
spec2vec is a novel similarity measure for comparing mass spectrometry data, which learns peak representations using Word2Vec.
- Machine learning
- Text analysis & natural language processing
- Batchfile
- Makefile
- Python
AMIRIS
AMIRIS is the open Agent-based Market model for the Investigation of Renewable and Integrated energy Systems. It aims at enabling scientists to dissect the complex questions arising with respect to future energy markets, their market design, and energy-related policy instruments.
- Agent-based Model
- electricity
- Energy
- + 4
- Java
- Python
- BibTeX
EnrichedHeatmap
Enriched heatmap is a special type of heatmap which visualizes the enrichment of genomic signals on specific target regions. The EnrichedHeatmap package provides advanced solutions for normalizing genomic signals within target regions as well as offering highly customizable visualizations.
- Data analysis
- Data Visualization
- FAIR Data
- + 2
- R
- CSS
- C++
MIRP
MIRP is a python package for quantitative analysis of medical images. It focuses on processing images for integration with radiomics workflows. These workflows either use quantitative features computed using MIRP, or directly use MIRP to process images as input for deep learning models.
- Medical Image Processing
- python
- radiomics
- Python
- Jupyter Notebook
- R
- + 2
NetworKit
NetworKit is a growing open-source toolkit for large-scale network analysis. Its aim is to provide tools for the analysis of large networks in the size range from thousands to billions of edges. It implements efficient graph algorithms, many of them parallel to utilize multicore architectures.
- algorithm engineering
- Graph algorithms
- Network Analysis
- C++
- Cython
- Python
- + 9
FastSurfer
FastSurfer is a fast and accurate deep-learning pipeline for the analysis of human brain MRI. FastSurfer provides a fully compatible FreeSurfer alternative for volumetric and surface-based thickness analysis, also supporting sub-mm resolutions, and sub-segmentation of neuroanatomical structures.
- Data analysis
- Deep Learning
- Image processing
- + 3
- Python
- Shell
- Jupyter Notebook
- + 1
CryoGrid
The CryoGrid Model Suite provides a set of numerical tools for simulating the thermal soil regime and the ice-water balance for permafrost and glaciers. Depending on the application needs different model tools are offered, characterized by different levels complexity and modularity.
- Climate
- Earth & Environment
- Modeling
- + 1
- MATLAB
- HTML
- Mercury
- + 2
Materials Learning Algorithms
MALA (Materials Learning Algorithms) is a data-driven framework to accelerate electronic structure calculations based on machine learning. Its purpose is to construct neural-network surrogate models for bypassing computationally expensive steps in state-of-the-art density functional simulations.
- Density functional theory
- electronic structure
- machine-learning
- + 2
- Python
- Fortran
- Shell
- + 1
snvec
snvec: Pre-computed Precession-Tilt solutions and C code.
- astronomical solution
- Astrophysics
- obliquity
- + 3
- C
svnecR
Easily calculate precession and obliquity from an astronomical solution and assumed or reconstructed values for dynamical ellipticity (Ed) and tidal dissipation (Td). This is a translation and adaptation of the C-code in Zeebe and Lourens (2022), with further details in Zeebe (2022).
- astronomical solution
- cyclostratigraphy
- dynamical ellipticity
- + 12
- R
- Rez
CoMOLA
CoMOLA is a python tool for optimal spatial allocation of land uses. The tool creates optimal land-use maps for up to four objectives. It takes into account constraints and can be coupled with external models to evaluate different objectives (e.g. ecosystem services/biodiversity models)
- land-use allocation
- multi-objective optimization
- NSGA-II
- Python
- R
BridgeDb Java
Java library for identifier mapping
- Data
- persistent identifiers
- Batchfile
- CSS
- HTML
- + 5