Correlation-based cluster mapping

Primary function for doing correlation-based mapping to cluster medians. This is wrapper for cor and returns a correlation matrix.

corTreeMapping(
  mapDat,
  medianDat,
  dend = NULL,
  refDat = NA,
  clusters = NA,
  genesToMap = rownames(mapDat),
  use = "p",
  method = "p"
)

Arguments

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

dend

dendrogram for mapping. If provided, correlations to nodes are also returned

refDat

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

clusters

cluster calls for each cell. Ignored if medianDat is passed

genesToMap

which genes to include in the correlation mapping

use

additional parameter for cor (use='p' as default)

method

additional parameter for cor (method='p' as default)

Value

matrix with the correlation between expression of each cell and representative value for each leaf and node