All software

simplifyEnrichment

A new clustering algorithm, "binary cut", for clustering similarity matrices of functional terms is implemeted in this package. It also provides functions for visualizing, summarizing and comparing the clusterings.

InteractiveComplexHeatmap

InteractiveComplexHeatmap is an R package that converts static heatmaps produced from ComplexHeatmap package into an interactive Shiny app only with one extra line of code.

SeisBench: A toolbox for machine learning in seismology

SeisBench is an open-source Python toolbox for machine learning in seismology. It brings together the whole machine learning model lifecycle: datasets and benchmarks, models and training pipelines, and efficient implementations for deploying the models in production.

BrainPrint

Our BrainPrint tools provide shape descriptors of neuroanatomical structures and require a FreeSurfer or FastSurfer segmentation as a pre-processing step. BrainPrint is based on “ShapeDNA” a spectral shape descriptor.

ESMValCore

rGREAT

GREAT is a type of functional enrichment analysis directly performed on genomic regions. This package implements the GREAT algorithm, also it supports directly interacting with the GREAT web service (the online GREAT analysis). Both analysis can be viewed by a Shiny application.

alpaka

The alpaka library is a header-only C++17 abstraction framework designed for computing accelerator development. It enables developers to implement algorithms once and execute them across a range of platforms, including x86, ARM, and RISC-V CPUs, as well as accelerators from NVIDIA, AMD, and Intel.

oemof.solph

oemof.solph is a model generator for energy system modelling and optimisation. It facilitates the formulation of (mixed-integer) linear programs from a generic graph-based structure, allowing to create multi-sector models on different levels of detail with user-defined time-resolution.

CiTYCHEM

The CiTYCHEM extension of the EPISODE dispersion model is designed for treating complex atmospheric chemistry in urban areas and improved representation of the near-field dispersion. Applications are urban air quality studies, environmental impact assessments and sector-specific emission studies.

FatSegNet

A fully automated deep learning pipeline for adipose tissue (visceral and subcutaneous) segmentation on abdominal Dixon MRI.

cola

Subgroup classification is a basic task in genomic data analysis. The cola package provides a general framework for subgroup classification by consensus partitioning.

Aviator

Aviator is a web service facilitating easy surveillance of scientific online tools. It currently checks more than 13,000 websites twice a day for availability and saves numerous features (response time, RAM usage security certificates, analytic tools / trackers, etc.) in a FAIR data repository.