Spatial_small_intestine

Code for CODEX data

This resource provides the R code to reproduce key results described in Harnik*, Yakubovsky*, Hoefflin* et al. "A spatial expression atlas of the adult human proximal small intestine". The necessary matrices can be found on zenodo: https://doi.org/10.5281/zenodo.10724499

File description:

1. "github_duodenum.R": Code

On zenodo:

1. "cells.csv": cells table including centroid coordinates and annotations
2. "raw_mat.csv": protein expression matrix without pre-processing
3. "norm_mat.csv": protein expression matrix after log2-transformation and per sample z-scoring