All software

JuKKR

The Korringa-Kohn-Rostoker (KKR) Greens function method is a highly accurate all-electron method to perform density functional theory calculations for the prediction of materials properties based on quantum mechanical simulations.

methylKit

methylKit is an R package for DNA methylation analysis and annotation from high-throughput bisulfite sequencing. The package is designed to deal with sequencing data from RRBS and its variants, but also target-capture methods and whole genome bisulfite sequencing.

MO|DE.behave

MO|DE.behave is a Python-based software package for the estimation and simulation of discrete choice models and shall enable rapid quantitative analyses based on survey data on choice behavior, utilizing advanced discrete choice methods. Please refer to 'doi.org/10.21105/joss.05265'.

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.

PeakPerformance

PeakPerformance is a Python toolbox for estimating peak areas from mass-spectrometry or HPLC datasets under uncertainty. It applies Bayesian inference using the PyMC library to parametric models of peak curves.

PiGx

PiGx is a collection of genomics pipelines. All pipelines are easily configured with a simple sample sheet and a descriptive settings file. The result is a set of comprehensive, interactive HTML reports with interesting findings about your samples.

Pyrrha

Pyrrha is a simple Python Flask WebApp to fasten the post-correction of lemmatized and morpho-syntactic tagged corpora.

reledmac

A package for typesetting scholarly critical editions.

SNIK Graph

supervillain

supervillain does Markov-Chain Monte Carlo for modified Villain constructions of quantum field theory.