Multiplexed Error Robust Fluorescence in Situ Hybridization(MERFISH)

Project Status

Ongoing

Project Deliverable

Develop an R/Bioconductor data package that implements single command actualization of MERFISH landmark datasets

Collaborator Name

Jeffrey Mofitt, PhD

HMS Department

Microbiology

Project Description

CCB will work on making MERFISH datasets accessible to the wider R/Bioconductor community, thereby connecting MERFISH data with the R/Bioconductor ecosystem of analysis packages and fostering new developments. This effort will include first implementing access to publicly available MERFISH datasets from within R/Bioconductor and then connecting the data package to novel ways of analyzing spatial transcriptomic data. Afterwards, the CCB team will work on connecting the data package and analysis results with integrative visualization tools to enable interactive exploration of segmentation, expression, and cell metadata on images.

There are 3 main objectives for this project: (1) develop an R/Bioconductor data package that implements single command actualization of MERFISH landmark datasets, (2) develop an RStudioConnect interface that enables interactive exploration of the data, (3) demonstrate applicability of novel analytic methods such as spatial graph analysis and cell-cell interaction analysis on MERFISH data.

Questions?

Contact Sunil Poudel with questions about this project.