fractionCorrectWithGenes: Fraction of cells correctly assigned

In AllenInstitute/mfishtools: Building Gene Sets and Mapping mFISH Data

Fraction of cells correctly assigned

Description

This function takes as input an ordered set of marker genes (e.g., from at iterative algorithm), and returns a vector showing the fraction of cells correctly mapped.

Usage

fractionCorrectWithGenes(
  orderedGenes,
  mapDat,
  medianDat,
  clustersF,
  verbose = FALSE,
  plot = TRUE,
  return = TRUE,
  ...
)

Arguments

orderedGenes	an ordered list of input genes (e.g. from an iterative algorithm)
mapDat	normalized data of the mapping (=reference) data set.
medianDat	median value for each leaf
clustersF	cluster calls for each cell
verbose	whether or not to show progress in the function
plot	if TRUE, plotCorrectWithGenes is run
return	if TRUE, the value is returned
...	parameters passed to plotCorrectWithGenes (if plot=TRUE)

Value

a vector showing the fraction of cells correctly mapped to each cluster

AllenInstitute/mfishtools documentation built on July 5, 2023, 4:20 p.m.