Check and report the type of data in Seurat object

This function checks and returns a string indicating the type of data. It checks for the presence of infinite values, negative values, and whether the values are floats or integers.

Usage

CheckDataType(object, ...)

# S3 method for class 'Seurat'
CheckDataType(object, layer = "data", assay = NULL, verbose = TRUE, ...)

# Default S3 method
CheckDataType(object, verbose = TRUE, ...)

Arguments

object: A Seurat object or a matrix.
...: The message to print.
layer: Which layer to use. Default is data.
assay: Which assay to use. If NULL, the default assay of the Seurat object will be used.
verbose: Whether to print the message. Default is TRUE.

Value

A string indicating the type of data. Possible values are: "raw_counts", "log_normalized_counts", "raw_normalized_counts", or "unknown".

Examples

data(pancreas_sub)
CheckDataType(pancreas_sub)
#> Warning: Layer ‘data’ is empty
#> Warning: no non-missing arguments to min; returning Inf
#> Warning: no non-missing arguments to max; returning -Inf
#> Warning: no non-missing arguments to max; returning -Inf
#> ! [2026-01-27 07:25:22] Infinite values detected
#> [1] "unknown"