GammaGateR: semi-automated marker gating for single-cell multiplexed imaging.

Jiangmei Xiong Harsimran Kaur Cody N Heiser Eliot T McKinley Joseph T Roland Robert J Coffey Martha J ShrubsoleJulia WrobelSiyuan MaKen S Lau Simon N Vandekar

Published in: bioRxiv : the preprint server for biology (2023)

GammaGateR is the first semi-automated marker gating tool for mIF image, and it will help to diminish the inconsistency with manual marker gating.With novel cfGMM, GammaGateR can fit flexibly across slides with different distributions and incorporate biology priors.GammaGateR is proven to reveal credible prognostic information, and it can quantify known findings in tumor cell populations.

Keyphrases

single cell
high throughput
rna seq
deep learning
machine learning
high resolution
healthcare
genome wide
dna methylation