tlsR: Detection and Spatial Analysis of Tertiary Lymphoid Structures
Fast, reproducible detection and quantitative analysis of tertiary lymphoid structures (TLS) in multiplexed tissue imaging. Implements Independent Component Analysis Trace (ICAT) index, local Ripley's K scanning, automated K Nearest Neighbor (KNN)-based TLS detection, and T-cell clusters identification as described in Amiryousefi et al. (2025) <doi:10.1101/2025.09.21.677465>.
| Version: |
0.1.2 |
| Depends: |
R (≥ 3.5) |
| Imports: |
fastICA, spatstat.geom, spatstat.explore, dbscan, RANN, grDevices, graphics, stats, utils |
| Suggests: |
testthat (≥ 3.0.0) |
| Published: |
2025-12-18 |
| DOI: |
10.32614/CRAN.package.tlsR |
| Author: |
Ali Amiryousefi 
[aut, cre],
Jeremiah Wala
[aut],
Peter Sorger
[ctb] |
| Maintainer: |
Ali Amiryousefi <ali_amiryousefi at hms.harvard.edu> |
| License: |
MIT + file LICENSE |
| NeedsCompilation: |
no |
| Materials: |
NEWS |
| CRAN checks: |
tlsR results |
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