Man pages for arcolombo/imcExperiment
Mass Cytometry S4 Class Structure Pipeline for Images

cellIntensityfinds the intensities getter.
datadata
dot-checkSpatialDimensionthe rows are the panel names, the columns are the single...
dot-imcExperimentToPPPmap to point pattern from imcExperiment class.
getCoordinatesfinds the spatial coords, getter.
getCoordinates-setSets the coordinate positions of each cell (matrix), columns...
getDistance-setre-assigns the distance matrix (rows are cells)
getMorphology-setre-assigns morphological features can be stored (matrix) rows...
getNeighborhoodfinds the neighborhood information.
getNetwork-setre-assigns the network assignment (matrix)
imcdataimcdata
imcExperimentInitializes a imcExperiment and performs some rudimentary...
imcExperiment-classa summarized experiment of IMC runs, dimensions of the...
imcExperimentToHyperFramemap to point pattern from imcExperiment class.
percentilenormalizegiven a matrix of intensity counts, perform min/max norm.
selectCasessubsets the imcExperiment to a case along with all slots for...
subsetCasesubsets the imcExperiment to a case along with all slots for...
arcolombo/imcExperiment documentation built on Aug. 21, 2021, 2:59 a.m.