evaluateMarkers: Evaluate a user specific query by calculating the precision...

In hemberg-lab/scfind: A search tool for single cell RNA-seq data by gene lists

Evaluate a user specific query by calculating the precision recall metrics

Description

Evaluate a user specific query by calculating the precision recall metrics

Usage

evaluate.cell.type.markers(object, gene.list, cell.types,
  background.cell.types, sort.field)

## S4 method for signature 'SCFind,character'
evaluateMarkers(object, gene.list, cell.types,
  background.cell.types, sort.field = "f1")

Arguments

object	the SCFind object
gene.list	the list of genes to be evaluated
cell.types	a list of cell types for the list to evaluated
background.cell.types	the universe of cell.types to consider
sort.field	the dataframe will be sorted according to this field

Value

a DataFrame that each row represent a gene score for a specific cell type

hemberg-lab/scfind documentation built on March 27, 2022, 8:56 p.m.