# single-cell higher order testing

## Documentation for package ‘scHOT’ version 1.21.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

.scHOT | scHOT class
liver | Liver trajectory example data
MOB_subset | MOB_subset spatial example data
params<- | Setter functions for scHOT objects
plotColouredExpression | plotColouredExpression
plotEgoNetwork | plotEgoNetwork
plotHigherOrderSequence | plotHigherOrderSequence
plotOrderedExpression | plotOrderedExpression
positionColData<- | Setter functions for scHOT objects
positionType<- | Setter functions for scHOT objects
scHOT | scHOT
scHOT-class | scHOT class
scHOT_addTestingScaffold | scHOT_addTestingScaffold
scHOT_buildFromMatrix | scHOT_buildFromMatrix
scHOT_buildFromSCE | scHOT_buildFromSCE
scHOT_calculateGlobalHigherOrderFunction | scHOT_calculateGlobalHigherOrderFunction
scHOT_calculateHigherOrderTestStatistics | scHOT_calculateHigherOrderTestStatistics
scHOT_estimatePvalues | scHOT_estimatePvalues
scHOT_output<- | Setter functions for scHOT objects
scHOT_performPermutationTest | scHOT_performPermutationTest
scHOT_plotPermutationDistributions | scHOT_plotPermutationDistributions
scHOT_setPermutationScaffold | scHOT_setPermutationScaffold
scHOT_setWeightMatrix | scHOT_setWeightMatrix
scHOT_stripOutput | scHOT_stripOutput
spatialWeightMatrix | spatialWeightMatrix
testingScaffold<- | Setter functions for scHOT objects
thin | thin
trajectoryWeightMatrix | trajectoryWeightMatrix
weightedPearson | weightedPearson
weightedSpearman | weightedSpearman
weightedVariance | weightedVariance
weightedZIKendall | weightedZIKendall
weightedZISpearman | weightedZISpearman
weightMatrix<- | Setter functions for scHOT objects