All software
13CFLUX
13CFLUX - third-generation, high-performance simulation engine for isotopically stationary and non-stationary 13C metabolic flux analysis within an open, extensible software ecosystem.
- Biotechnology
- Fluxomics
- Isotope labeling
- + 6
- C++
- Python
- CMake
- + 2
BioAutoML - Democratizing Machine Learning in Life Sciences
BioAutoML automatically runs an end-to-end ML pipeline that can be effectively employed by non-experts. BioAutoML does not require specialized human assistance, i.e., it only needs a training dataset of biological sequences (FASTA files) to perform an end-to-end ML experiment.
- Artificial Intelligence
- Big data
- BioAutoML
- + 3
- Jupyter Notebook
- Python
Helmholtz Research Software Directory
The Helmholtz Research Software Directory is a place to discover and promote research software. Designed for Research Software Engineers and Scientists, it aims to foster FAIR and reuseability of software.
- FAIR Software
- TSX
- TypeScript
- PLpgSQL
- + 2
JUBE
JUBE is a generic, lightweight, configurable environment to run, monitor and analyse application execution in a systematic way. This software is commonly used to execute benchmarks and complex workflows on High Performance Computers, but is not limited to these systems.
- Benchmark
- Benchmarking
- High performance computing
- + 5
- Python
- Shell
- C
MLAir
MLAir (Machine Learning on Air data) is an environment that simplifies and accelerates the creation of new machine learning (ML) models for the analysis and forecasting of meteorological and air quality time series.
- Python
- Shell
- Jupyter Notebook
- + 2
QuaCCAToo
QuaCCAToo is a Python library for simulating and analyzing spin dynamics of color centers under different experiments. The systems’ time evolution under pulsed sequences are calculated through quantum master equations based on the provided Hamiltonian, with realistic pulses in the laboratory frame.
- Color Centers
- Pulsed Experiments
- Quantum Technologies
- + 1
- Python
AiiDA-Spirit
AiiDA plugin for FAIR high-throughput spin-dynamics simulations with the Spirit code (http://spirit-code.github.io/).
- data managment
- Data Visualization
- FAIR Data
- + 5
- JavaScript
- Python
- HTML
- + 1
AutoPQ
Automated point forecast-based quantile forecasts
- Energy
- ESD
- ESD - Topic 2
- + 3
- Python
microGWAS
microGWAS is a snakemake-powered pipeline to carry out an end-to-end microbial GWAS analysis. Starting from genome assemblies and a phenotype file, microGWAS will run a number of associations using pyseer, annotate the associations results, and generating a number of functional enrichment tests.
- GWAS
- mGWAS
- Pipeline
- + 2
- Python
- Shell
- R
stream2segment
A Python library and command line application to download, process and visualize event-based seismic waveform segments, specifically designed to manage big volumes of data
- Big data
- data managment
- Data Visualization
- + 5
- Python
- Jupyter Notebook
- HTML
- + 1
TomoBEAR
TomoBEAR is an open-source configurable and customizable modular pipeline for streamlined and parallelized processing of large-scale cryo-electron tomography data for subtomogram averaging.
- Alignment
- automated reasoning
- cluster
- + 16
- MATLAB
- M
- Python
- + 1
atoMEC
atoMEC is a python-based average-atom code for simulations of high energy density phenomena such as in warm dense matter. It is designed as an open-source and modular python package.
- Matter
- Python
- Shell