This repository is an exploratory resource to accelerate opensource analysis of CosMx™ Spatial Molecular Imager (SMI) data. Contained here are and writeups and vignettes addressing a variety of topics discussed when analyzing single-cell spatial data.
Note: Code in this repo is provided without warranty or promise of support. This is not official NanoString software and has not been subjected to the usual rigorous review and testing.
This repo contains scripts, package source code, and the package vignettes. Many of these elements are used to create the blog posts which can be found here: https://nanostring-biostats.github.io/CosMx-Analysis-Scratch-Space/.
Code and mini-packages can be found in the _code directory. Individual blog posts may also contain code snippets and code can be found in their respective folders located in the posts folder.
Please see the license tab for more information.