getClassificationData: Get Classification data

In khodosevichlab/CellAnnotatoR: Automated marker-based cell type annotation

Get Classification data

Description

prepare information neccessary for cell type classification

Usage

getClassificationData(
  cm,
  markers,
  prenormalized = F,
  data.gene.id.type = "SYMBOL",
  marker.gene.id.type = "SYMBOL",
  db = NULL,
  verbose = F
)

Arguments

cm	gene count matrix with cells by columns and genes by rows. May be in raw, TC-normalized or tf-idf-normalized format (in case of tf-idf, 'prenormalized' must be set to 'T')
markers	path to the file with marker genes or parsed marker list from 'parseMarkerFile' function
prenormalized	is 'cm' in tf-idf-normalized format? Default: FALSE.

khodosevichlab/CellAnnotatoR documentation built on June 29, 2022, 9:12 p.m.