locate_images: Locate image files

In LieberInstitute/spatialLIBD: spatialLIBD: an R/Bioconductor package to visualize spatially-resolved transcriptomics data

Locate image files

Description

Creates a named character() vector that can be helpful for locating image files and used with add_images(). This function is not necessary if the image files don't use the spe$sample_id.

Usage

locate_images(spe, image_dir, image_pattern)

Arguments

spe	A SpatialExperiment-class object. See fetch_data() for how to download some example objects or read10xVisiumWrapper() to read in spaceranger --count output files and build your own spe object.
image_dir	A character(1) specifying a path to a directory containing image files with the pattern sampleID_pattern.png.
image_pattern	A character(1) specifying the pattern for the image files.

Value

A named character() vector with the path to images.

See Also

Other Functions for adding non-standard images: add_images()

Examples

## Not run: 
locate_images(spe, tempdir(), "testImage")

## End(Not run)

LieberInstitute/spatialLIBD documentation built on Nov. 4, 2024, 11:57 a.m.