(Euclidean) distance mapping

Returns the distance between expression of each cell and representative value for each node and leaf (default is based on euclidean distance). In our hands this is does not work very well.

distTreeMapping(
  dend = NA,
  refDat = NA,
  mapDat = refDat,
  medianDat = NA,
  clusters = NA,
  genesToMap = rownames(mapDat),
  returnSimilarity = TRUE,
  use = "p",
  ...
)

Arguments

dend

dendrogram for mapping. Ignored if medianDat is passed

refDat

normalized data of the REFERENCE data set. Ignored if medianDat is passed

mapDat

normalized data of the MAPPING data set. Default is to map the data onto itself.

medianDat

representative value for each leaf and node. If not entered, it is calculated

clusters

cluster calls for each cell. Ignored if medianDat is passed

genesToMap

which genes to include in the correlation mapping

returnSimilarity

FALSE to return distance, TRUE to return something like a similarity

use, ...

additional parameters for dist (for back-compatiblity; doesn't work)

Value

matrix of Euclidean distances between cells (rows) and clusters (columns)