SpatialRNA-class: An S4 class to represent Spatial Transcriptomic data

In lulizou/spASE: Detecting Allele-Specific Expression in Spatial Transcriptomics

An S4 class to represent Spatial Transcriptomic data

Description

An S4 class to represent Spatial Transcriptomic data

Slots

coords

a dataframe with x and y coordinates of each pixel

counts

a sparse matrix of raw counts for each gene (rowname) and each pixel (colnames or barcodes)

maternalCounts

a sparse matrix of raw maternal counts for each gene (rowname) and each cell (colnames or barcodes)

paternalCounts

a sparse matrix of raw paternal counts for each gene (rowname) and each cell (colnames or barcodes)

n_cell_type

the number of cell types

cell_type_names

a list of cell type names

nUMI

a named list (by barcode) of total UMIs per pixel

cell_labels

a factor of cell type labels for each pixel

lulizou/spASE documentation built on May 22, 2024, 5:24 a.m.