crossTab-scPred-method: Gets contingency table

In IMB-Computational-Genomics-Lab/scPred: scPred - Single cell prediction using singular value decomposition and machine learning classification

Description

If the predMeta slot contains a column with the true classes of the cells, builds a contingency table by using this column as reference and comparing it to the predicted classes obtained with scPredict. If an independent column with predicted classes is in the prediction metadata, this column instead of the default classes assigned by scPred can be provided using the pred parameter.

Usage

## S4 method for signature 'scPred'
crossTab(object, true, pred = NULL, fill = 0,
  prop = TRUE, digits = 2)

Arguments

object	scPred object
true	Column name in predMeta slot that corresponds to the true known classes
pred	Column name in predMeta slot that corresponds to the predicted classes if they have been assigned independently from the scPredict() function
fill	Value to fill contingency table ff unique cell classes from the true and the predicted columns do not match.
prop	Return proportions or counts? Default: proportions
digits	If proportions are returned, number of digits to round numbers

Value

A contingency table

Author(s)

Jos<c3><a9> Alquicira Hern<c3><a1>ndez

IMB-Computational-Genomics-Lab/scPred documentation built on Jan. 11, 2020, 7:37 a.m.