Write tabular and bioinformatics file formats — sn_write • Shennong

A Shennong wrapper around rio::export() with support for common single-cell formats such as BPCells, .h5ad, and 10x .h5.

This adapter is exported so rio can dispatch to it.

Usage

sn_write(x, path = NULL, to = NULL, ...)

.export.rio_bpcells(file, x, overwrite = FALSE, ...)

.export.rio_h5ad(file, x, mode = "w", ...)

.export.rio_h5(file, x, ...)

Arguments

x: Object to write.
path: Output path.
to: Optional format override when it cannot be inferred from path.
...: Additional arguments forwarded to the underlying exporter.
file: Output path used by the exported rio adapter methods.
overwrite: Logical; overwrite an existing BPCells directory.
mode: File mode passed through to anndataR::write_h5ad().

Value

Invisibly returns the output path.

See also

Examples

tmp <- tempfile(fileext = ".csv")
sn_write(mtcars[1:3, 1:3], tmp)