bind_formal_tags: add mapping from informal to formal cell type tags to a...

In ontoProc: processing of ontologies of anatomy, cell lines, and so on

Description

add mapping from informal to formal cell type tags to a SummarizedExperiment colData

Usage

bind_formal_tags(se, informal, tagmap, force = FALSE)

Arguments

se	SummarizedExperiment instance
informal	character(1) name of colData element with uncontrolled vocabulary
tagmap	data.frame with columns 'informal' and 'formal'
force	logical(1), defaults to FALSE; if TRUE, allows clobbering existing colData variable named "formal"

Value

SummarizedExperiment instance with a new colData column 'label.ont' giving the formal tags associated with each sample

Note

This function will fail if the value of 'informal' is not among the colData variable names, or if "formal" is among the colData variable names.

ontoProc documentation built on Nov. 8, 2020, 4:49 p.m.