SGI: automatic clinical subgroup identification in omics datasets.

ABSTRACT:

Summary

The 'Subgroup Identification' (SGI) toolbox provides an algorithm to automatically detect clinical subgroups of samples in large-scale omics datasets. It is based on hierarchical clustering trees in combination with a specifically designed association testing and visualization framework that can process an arbitrary number of clinical parameters and outcomes in a systematic fashion. A multi-block extension allows for the simultaneous use of multiple omics datasets on the same samples. In this article, we first describe the functionality of the toolbox and then demonstrate its capabilities through application examples on a type 2 diabetes metabolomics study as well as two copy number variation datasets from The Cancer Genome Atlas.

Availability and implementation

SGI

SUBMITTER: Buyukozkan M 

PROVIDER: S-EPMC8723155 | biostudies-literature | 2022 Jan

REPOSITORIES: biostudies-literature