# Detection and Spatial Analysis of Tertiary Lymphoid Structures

## Documentation for package ‘tlsR’ version 0.3.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

tlsR-package | tlsR: Detection and Spatial Analysis of Tertiary Lymphoid Structures
calc_icat | Calculate ICAT (Independent Component Analysis Trace) Index for TLS
detect_tic | Detect T-cell Immune Clusters (TIC) on the Tissue
detect_TLS | Detect Tertiary Lymphoid Structures using a KNN-density approach
plot_TLS | Plot Spatial Map of TLS and T-cell Clusters
scan_clustering | Scan Tissue for Local Immune Cell Clustering (Ripley's L Heatmap)
summarize_TLS | Summarize Detected TLS Across Samples
tlsR | tlsR: Detection and Spatial Analysis of Tertiary Lymphoid Structures
toy_ldata | Toy Multiplexed Imaging Data