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bioc
openCyto:Hierarchical Gating Pipeline for flow cytometry data
This package is designed to facilitate the automated gating methods in sequential way to mimic the manual gating strategy.
Maintained by Mike Jiang. Last updated 6 days ago.
immunooncologyflowcytometrydataimportpreprocessingdatarepresentationcpp
8.02 score 404 scripts 1 dependents
lance-waller-lab
gateR:Flow/Mass Cytometry Gating via Spatial Kernel Density Estimation
Estimates statistically significant marker combination values within which one immunologically distinctive group (i.e., disease case) is more associated than another group (i.e., healthy control), successively, using various combinations (i.e., "gates") of markers to examine features of cells that may be different between groups. For a two-group comparison, the 'gateR' package uses the spatial relative risk function estimated using the 'sparr' package. Details about the 'sparr' package methods can be found in the tutorial: Davies et al. (2018) <doi:10.1002/sim.7577>. Details about kernel density estimation can be found in J. F. Bithell (1990) <doi:10.1002/sim.4780090616>. More information about relative risk functions using kernel density estimation can be found in J. F. Bithell (1991) <doi:10.1002/sim.4780101112>.
Maintained by Ian D. Buller. Last updated 1 years ago.
cytometryflow-cytometrygatingkernel-density-estimationmass-cytometrynon-euclidean-spacesspatial-analysis
2 stars 4.00 score 6 scripts