read10XImage-methods: Read ST metadata.

In edroaldo/fusca: Framework for Unified Single-Cell Analysis

Read ST metadata.

Description

Read the tissue image, the scale factor and the barcodes of the spatial transcriptomics metadata and add them to the respective assay metadata.

Usage

read10XImage(
  object,
  assay.type = "ST",
  sample_names,
  image_paths,
  scalefactor_paths,
  tissue_paths
)

## S4 method for signature 'CellRouter'
read10XImage(
  object,
  assay.type = "ST",
  sample_names,
  image_paths,
  scalefactor_paths,
  tissue_paths
)

Arguments

object	the CellRouter object.
assay.type	character; the type of data to use.
sample_names	character; names of the tissue samples.
image_paths	character; file path of the tissue image (png format).
scalefactor_paths	character; file path of the scale factor (json format).
tissue_paths	character; file path of the positions of tissue barcodes (csv format).

Value

the CellRouter object.

edroaldo/fusca documentation built on March 1, 2023, 1:43 p.m.