All software

ComplexHeatmap

Complex heatmaps are efficient in visualizing associations between different sources of data sets and revealing potential patterns. Here the ComplexHeatmap package provides a highly flexible way to arrange multiple heatmaps and supports various annotation graphics.

maftools

maftools is a comprehensive toolkit for processing somatic variants from cohort-based cancer genomic studies

circlize

Circular layout is an efficient way for the visualization of huge amounts of information. The circlize package provides an implementation of circular layout generation in R.

anvi'o

anvi'o is an open-source software platform for microbial 'omics research enabling analysis and visualization of 'omics data. In development since 2014, it is currently being maintained by the Ecosystem Data Science group at the Helmholtz Institute for Functional Marine Biodiversity.

JPlag

JPlag is one of the most popular source code plagiarism detection systems worldwide.

DataSHIELD

DataSHIELD ecosystem is an infrastructure and series of R packages that enables the remote and non-disclosive analysis of sensitive research data. It has been used with real world and consented research data for over 10 years.

Earth System Model Evaluation Tool (ESMValTool)

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.

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.

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.

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.

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)