imaap_marker_drop: Annotation of cells that did not express one or more markers

In labsyspharm/IMAAP: Annotation and Analysis of Multiplexed Imaging Data

Description

When multiple markers are used for annotation of a cell type, it is possible that one or more markers are not expressed, this function identifies those cells and marks them.

Usage

imaap_marker_drop(cell_prob, cell_annotation, cheat_sheet)

Arguments

cell_prob	Probabilty of expression of a cell type calculated using the function- imaap_prob
cell_annotation	Output of imaap_annotation
cheat_sheet	A CSV file listing the the markers that are used to define a cell type. It needs to follow the defined template.

Value

Returns a cell type annotation for cells that have lost one or more markers

labsyspharm/IMAAP documentation built on Nov. 4, 2019, 4:15 p.m.