Reads the transcript localization and metadata table. This table will be used by subsequent function in this package.
Arguments
- path
The file path from which to read the transcriptome metadata.
- platform
The platform for which the transcriptome metadata is being read. Valid options are 'Xenium', 'CosMx', and 'Merscope'.
Value
Returns a data table with the transcriptome metadata. For 'Xenium', the 'feature_name' column is renamed to 'target'. For 'CosMx', the transcriptome file matching '*tx_file.csv.gz' is read.
Details
#' This function reads transcriptome metadata from a specified path, depending on the platform specified. Currently supports 'Xenium' and 'CosMx' platforms. For 'Xenium', it reads 'transcripts.csv.gz' and renames the 'feature_name' column to 'target' for consistency. For 'CosMx', it reads the appropriate transcriptome file matched by '*tx_file.csv.gz'.