InSituCor

An R package for discovering modules of spatially correlated genes in spatial transcriptomics data.

dev notes

• The "insitucor" function runs the whole pipeline.
• Alternatively, you can run the intermediate wrapper functions one at a time.

System requirements

• R (>= 3.5.0)
• UNIX, Mac or Windows
• see DESCRIPTION for full dependencies

Demo

See the "vignettes" folder. Vignettes should run in <2 minutes.

Instructions for use

The "insitucor" function runs the complete workflow.

Architecture:

Reproduction instructions

The analyses from the manuscript will be made available at https://github.com/Nanostring-Biostats/InSituCor-manuscript-analyses.

Installation

devtools::install_github("https://github.com/Nanostring-Biostats/InSituCor")

Installation should take < 1 min on a normal desktop computer.