MoleculeExperiment enables consistent infrastructure for molecule-resolved spatial omics data in bioconductor.

ABSTRACT:

Motivation

Imaging-based spatial transcriptomics (ST) technologies have achieved subcellular resolution, enabling detection of individual molecules in their native tissue context. Data associated with these technologies promise unprecedented opportunity toward understanding cellular and subcellular biology. However, in R/Bioconductor, there is a scarcity of existing computational infrastructure to represent such data, and particularly to summarize and transform it for existing widely adopted computational tools in single-cell transcriptomics analysis, including SingleCellExperiment and SpatialExperiment (SPE) classes. With the emergence of several commercial offerings of imaging-based ST, there is a pressing need to develop consistent data structure standards for these technologies

SUBMITTER: Peters Couto BZ 

PROVIDER: S-EPMC10504467 | biostudies-literature | 2023 Sep

REPOSITORIES: biostudies-literature