CorrelateReference: Correlate all reference profiles to each other using...

Description Usage Arguments Value Examples

View source: R/Utils_CHETAH.R

Description

Correlate all reference profiles to each other using differentially expressed genes.

Usage

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CorrelateReference(ref_cells = NULL, ref_profiles = NULL,
  ref_ct = "celltypes", ref_c = NA, return = FALSE, n_genes = 200,
  fix_ngenes = TRUE, print_steps = FALSE, only_pos = FALSE)

Arguments

ref_cells

the reference, similar to CHETAHclassifier's ref_cells

ref_profiles

similar to CHETAHclassifier's ref_profiles

ref_ct

the colData of ref_cells where the cell types are stored.

ref_c

the assay of ref_cells to use

return

return the matrix that was used to produce the plot

n_genes

as in CHETAHclassifier

fix_ngenes

as in CHETAHclassifier

print_steps

as in CHETAHclassifier

only_pos

as in CHETAHclassifier

Value

A square plot. The values show how much two reference profiles correlate, when using the genes with the highest fold-change.

Examples

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CHETAH documentation built on Nov. 8, 2020, 8:02 p.m.