scClassify: single-cell Hierarchical Classification


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Documentation for package ‘scClassify’ version 1.6.0

Help Pages

.scClassifyTrainModel The scClassifyTrainModel class
cellTypeTrain Accessors of cellTypeTrain for scClassifyTrainModel
cellTypeTrain-method Accessors of cellTypeTrain for scClassifyTrainModel
cellTypeTree Accessors of cellTypeTree for scClassifyTrainModel
cellTypeTree-method Accessors of cellTypeTree for scClassifyTrainModel
features Accessors of features for scClassifyTrainModel
features-method Accessors of features for scClassifyTrainModel
getN Function to get the required N given by the accuracy and the learning curve model
learningCurve Fit learning curve for accuracy matrix
model Accessors of model for scClassifyTrainModel
model-method Accessors of model for scClassifyTrainModel
modelweights Accessors of modelweights for scClassifyTrainModel
modelweights-method Accessors of modelweights for scClassifyTrainModel
name Accessors of name for scClassifyTrainModel
name-method Accessors of name for scClassifyTrainModel
plotCellTypeTree To plot cell type tree
predict_scClassify Testing scClassify model
predict_scClassifyJoint Testing scClassify model (joint training)
runHOPACH Create HOPACH tree
runSampleCal Run sample size calculation for pilot data for reference dataset
scClassify Train and test scClassify model
scClassifyTrainModel-class An S4 class to stored training model for scClassify
scClassifyTrainModelList The scClassifyTrainModelList class
scClassifyTrainModelList-class An S4 class to stored a list of training models from scClassify
scClassify_example Example data used in scClassify package
trainClassExample_wang Subset of pretrained model of Wang et al.
trainClassExample_xin Subset of pretrained model of Xin et al.
train_scClassify Training scClassify model