selectInfo: Select Informative Genes used in the deconvolution

In YingMa0107/CARD: Spatially Informed Cell Type Deconvolution for Spatial Transcriptomics

Select Informative Genes used in the deconvolution

Description

Select Informative Genes used in the deconvolution

Usage

selectInfo(Basis, sc_eset, commonGene, ct.select, ct.varname)

Arguments

Basis	Reference basis matrix.
sc_eset	scRNAseq data along with meta data stored in the S4 class format (SingleCellExperiment).
commonGene	common genes between scRNAseq count data and spatial resolved transcriptomics data.
ct.select	vector of cell type names that you are interested in to deconvolute, default as NULL. If NULL, then use all cell types provided by single cell dataset;
ct.varname	character, the name of the column in metaData that specifies the cell type annotation information

Value

a vector of informative genes selected

YingMa0107/CARD documentation built on Feb. 14, 2024, 12:23 p.m.