All software
NPLinker eScience Workshop GenMetMine Materials
These materials were used as a part of the NPLinker eScience Workshop on Natural Product Genome & Metabolome Mining: https://www.wur.nl/en/research-results/chair-groups/plant-sciences/bioinformatics/teaching/nplinker_workshop.htm Most materials are available in a format facilitating its reuse.
- Data mining
- genomics
- Inter-operability & linked data
- + 4
Pycoeus
Pycoeus is a command-line tool and python package designed for exploration of multiband geospatial datasets. It lets the user iteratively train and retrain segmentation models in seconds. A combination of Deep learning and traditional machine learning is used, leveraging the best of both methods.
- deep learning
- gis
- Machine learning
- + 2
- (Python)
QMCTorch
Use and design neural network ansatz wave function for real-space quantum Monte Carlo simulations of molecular systems.
- Computational Chemistry
- GPU
- High performance computing
- + 2
- (Python)
- (TeX)
ReSurfEMG
ReSurfEMG is an open source collaborative python library for analysis of respiratory electromyography (EMG). The library includes functions for pre-processing, analysis and machine learning.
- electrophysiology
- EMG
- Machine learning
- + 1
- (Batchfile)
- (Dockerfile)
- ("Jupyter Notebook")
- + 3
Satsense
A Python library for land use classification based in satellite images.
- Image processing
- Machine learning
- ("Jupyter Notebook")
- (Python)
Springtime
Spatiotemporal phenology research with interpretable models
- geospatial
- Machine learning
- phenology
- (Dockerfile)
- (Python)
SSIML2021
Software developed in the project Automation of the Cognitive Mapping Text-analysis Technique
- Machine learning
- Text analysis & natural language processing
- ("Jupyter Notebook")
- (Python)
Streetscapes
Streetscapes is a package for code for downloading, segmenting and analysing images from Mapillary and KartaView.
- deep learning
- geospatial
- Image processing
- + 2
- ("Jupyter Notebook")
- (Python)
Streetview Segmentation
Perform semantic segmentation on images, using Facebook's Mask2Former models.
- docker
- image recognition
- Machine learning
- + 2
- (Dockerfile)
- (Python)
Swan
Swan is a Python package to create statistical models to predict molecular properties
- Machine learning
- ("Jupyter Notebook")
- (Python)
TaxoTagger Webapp
Webapp for DNA barcode identification, powered by semantic searching.
- Fungi
- Machine learning
- semantic search
- + 3
- (Python)
UNSAT3D
Soil health is essential for infrastructure and plant growth. The UNSAT project aims to improve 3D soil image processing using machine learning and high-fidelity simulation data to study water transport and root-soil interactions during maize growth.
- Data Analysis
- Machine learning
- (Python)
- (Shell)