Export SummarizedExperiment to H5AD (AnnData) format — export_h5ad • coMMpass

Converts a [SummarizedExperiment::SummarizedExperiment] to AnnData format and writes an H5AD file for Python/scanpy interoperability.

Usage

export_h5ad(se, output_path, assay_name = NULL)

Arguments

se: A [SummarizedExperiment::SummarizedExperiment] object
output_path: Path for the output .h5ad file
assay_name: Which assay to export (default "unstranded", falls back to "counts" then first available)

Value

The output path (invisibly)

See also

Other utilities: create_summary_table(), example_data(), format_file_size(), format_with_commas(), gene_report(), strip_plotly()

Examples

if (FALSE) { # \dontrun{
d <- example_data()
export_h5ad(d$rnaseq_se, "commpass.h5ad")
} # }