Devonvolute bulk RNA-seq data based on reference data

Devonvolute bulk RNA-seq data based on reference data

# S3 method for default
deconvolute(
  expr_mat,
  genes_use,
  reference = "ABA",
  stage = "E13",
  annotation_level = "custom_2",
  pseudo_tpm = FALSE,
  other_types = FALSE,
  involve_regions = NULL
)

deconvolute(object, ...)

Arguments

expr_mat

Expression matrix to deconvolute.
genes_use

Marker genes to use for deconvolution.
reference

Which reference to use.
stage

Developmental stage to use as reference.
other_types

Whether to infer proportions of type 'other'.

Value

A tibble with deconvoluted proportions for each reference structure.