ASimulatoR
ASimulatoR is an R package for the simulation of RNA-seq reads with alternative splicing events. It is freely available on GitHub.
Fastlogranktest
Fastlogranktest is a software package providing wicked-fast implementations of the logrank test in C++, R, and Python. The Python package and R package provide wrappers around the C++ implementation. Both offer a fast alternative to the standard logrank-test implementations in the liflines.statistics and survival packages, respectively. All you have to do is install the package
NEASE
NEASE (Network-based Enrichment method for Alternative Splicing Events) is a Python package for the functional enrichment of alternative splicing events. The tool is available on GitHub.
Spycone
Spycone is a python package for a splicing-aware analysis of time course data. It is available on Github.
Scellnetor
Scellnetor is a novel scRNA-seq clustering tool. It allows the analysis of pseudo time-courses in single-cell sequencing data via a network-constrained clustering algorithm. Scellnetor is available as interactive online application at the Scellnetor website.
BiCoN
BiCoN is a powerful new systems medicine tool to stratify patients while elucidating the responsible disease mechanisms. BiCoN is a network-constrained biclustering approach which restricts biclusters to functionally related genes connected in molecular interaction networks and maximizes the expression difference between two subgroups of patients. A package for network-constrained biclustering of patients and multi-omics data
Epistasis Disease Atlas
The EDA is a comprehensive database focused on epistatic interactions, analyzing how groups of genes work together to cause complex diseases. The atlas currently covers Alzheimer’s, rheumatoid arthritis, bipolar disorder, coronary heart disease, inflammatory bowel disease, type 1 and type 2 diabetes, and hypertension. Data is accessible through a user-friendly R-Shiny app for searching, visualization,
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