id_rl: identify receptors and ligands

In kgellatl/SignallingSingleCell: Network Analysis for single cell RNA sequencing Data (sc-RNASeq)

Description

This function will id receptors and ligands in your data and mark them in fData

Usage

id_rl(input, database = "helft")

Arguments

input

the input ex_sc

Details

This will use data(Receptor_Ligand_Data) to write to fData 3 columns, one for receptors, one for ligands, and one for the expressed pairs. TRUE FALSE in the first 2 if the gene is a ligand or receptor respectively. For all pairs where both a receptor and ligand are expressed, a 3rd column named networks_expressed_pairs will be created with all ligands expressed that bind that receptor. Note that this uses HUMAN GENE NAMES!!

Examples

ex_sc_example <- id_rl(input = ex_sc_example)

kgellatl/SignallingSingleCell documentation built on Dec. 29, 2021, 4:12 p.m.