Software

btest combines block nonparametric hypothesis testing with false discovery rate correction to enable high-sensitivity discovery of linear and non-linear associations in high-dimensional datasets (which may be categorical, continuous, or mixed).

deepBreaks, a computational method, aims to identify important changes in association with the phenotype of interest using multi-alignment sequencing data from a population.

massSight is an R package for the alignment and scaling of LC-MS metabolomics data.

omeClust is a clustering method that detects clusters of features using omics data and scores metadata (resolution score) based on their influences in clustering. The similarity of features within each cluster can be different (different resolution). Resolution of similarity score takes to account not only similarity between measurements and also the structure in a hierarchical structure of data and number of features which group together.

R package for ’omics pathway enrichment analysis

omicsArt is a tool for the quality control, statistical analysis, and visualization of omics data. omicsArt is currently under development, and we will regularly release the documentation and tutorials.

create summary figures of PUBMED trends

seqSight is a tool to jointly profile microbial strains, genes, and biosynthetic gene clusters from metagenomics data; it is designed to provided maximum utility to the user by incorporating a number of analysis modules for the quantification of not only bacterial strains but also gene families and biosynthetic gene clusters. seqSight also incorporates quality control modules and visualization tools.

R package for differential analysis of ’omics data via Tweedie distributions

Gaussian Processes (GP)-based tool to characterize temporal dynamics of longitudinal omics and clinical data