Build reference atlases from external UCSC cellbrowsers — get_ucsc_reference • clustifyr

Build reference atlases from external UCSC cellbrowsers

Usage

get_ucsc_reference(cb_url, cluster_col, ...)

Arguments

cb_url: URL of cellbrowser dataset (e.g. http://cells.ucsc.edu/?ds=cortex-dev). Note that the URL must contain the ds=dataset-name suffix.
cluster_col: annotation field for summarizing gene expression (e.g. clustering, cell-type name, samples, etc.)
...: additional args passed to average_clusters

Value

reference matrix

Examples

if (FALSE) {
get_ucsc_reference(cb_url = "http://cells.ucsc.edu/?ds=kidney-atlas%2FFetal_Immune",
                   cluster_col = "celltype")
}