Multiplex imaging data from a non-small cell lung cancer study

This data is adapted from the VectraPolarisData Bioconductor package. There are multiple ROIs for each patient.

Usage

lung_FDA

Format

`lung_FDA`

An mxFDA object with augmented non-small cel lung cancer multiplex immunofluorescence data, and NN G(r) calculated:

Metadata: information about the spatial samples with column sample_key column in both
Spatial: cell-level information with x and y columns along with sample_key to link to Metadata
subject_key: column in Metadata that may have multiple sample_key values for each, akin to patient IDs
sample_key: column in both Metadata and Spatial that is a 1:1 with the samples (unique per sample)
univariate_summaries: univariate summary slot with nearest neighbor G calculared
bivariate_summaries: empty slot available for bivariate summaries
multiivariate_summaries: empty slot available for multivariate summaries
functional_pca: empty slot for functional PCA data of summaries
functional_cox: empty slot for functional models

Source

https://bioconductor.org/packages/release/data/experiment/html/VectraPolarisData.html

Details

Spatial summary functions of lung cancer multiplex imaging data.

This data is adapted from the VectraPolarisData Bioconductor package. Signal between the survival outcome and spatial summary functions has been augmented for teaching purposes. Spatial relationship is summarized using the nearest neighbor G function.

Includes only spatial samples that had 10 or more radii with calculable G function