Software

BoostDiff is a Python tool to infer differential gene regulatory networks from gene expression data.

Category: Software

Our Python test suite confinspect allows to assess the effect of demographic confounders such as sex and age on methods for inferring gene regulatory and gene co-expression networks.

Category: Software

GraphSimViz is a web service for quantification of biases phenotype-based disease definitions introduce in disease association data.

Category: Software

CorrNet is a Python package for the analysis of historical correspondence networks.

Category: Software

TF-Prioritizer is an automated pipeline that prioritizes condition-specific transcription factors from multimodal data and generates an interactive web report.  It accepts ATAC, DNase, or ChIP sequencing and RNA sequencing data as input and identifies TFs with differential activity

Category: Software

DIGEST is a systems medicine tool for the in silico validation of gene and disease sets, clusterings, and subnetworks w.r.t. genetic and functional coherence. It is available as a web service, as a Python package, and via a REST API.

Category: Software

ROBUST is a Python tool which uses enumeration of diverse prize-collecting Steiner trees to compute disease modules that are robust to random bias.

Category: Software

Fever-PCA (federated principal component analysis for vertically partitioned data) is a federated, privacy-preserving tool for principal component analysis, including patient stratification and dimensionality reduction.

Category: Software

Flimma is a privacy-preserving hybrid federated tool for differential gene expression analysis. Flimma by design preserves the privacy of the local data, since the expression profiles never leave the local execution sites and shared meta-parameters are protected via secure multi-party computation.

Category: Software

NeDRex (network-based drug repurposing and exploration) is an interactive network medicine platform for disease module identification and drug repurposing.

Category: Software