Correlation based mapping

Correlation based mapping

corrMap(
  AIT.anndata,
  query.data,
  genes.to.use = NULL,
  normalize.if.needed = TRUE
)

Arguments

AIT.anndata

A reference taxonomy anndata object.

query.data

A logCPM normalized matrix to be annotated.

genes.to.use

The set of genes to use for correlation calculation and/or Seurat integration (default is the highly_variable_genes associated with the current mode). Can be (1) a character vector of gene names, (2) a TRUE/FALSE (logical) vector of which genes to include, or (3) a column name in AIT.anndata$var corresponding to a logical vector of variable genes.

normalize.if.needed

Should query.data be automatically log-normalized if it contains exceedingly large values (>30). Default = TRUE.

Value

Correlation mapping results as a data.frame.