Read in Xenium, CosMx, MERSCOPE or STARmapPLUS data as SpatialExperiment object

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Documentation for package ‘SpatialExperimentIO’ version 1.0.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

.sanityCheck	Sanity check if one and only file with the specified name pattern exists in the data download directory, and return the file path to .csv Used for count matrix and metadata only, as they require unique.
addParquetPathsCosmx	Add CosMx-related parquet paths to metadata for transcripts, polygon, or cell/nucleus boundaries.
addParquetPathsXenium	Add Xenium-related parquet paths to metadata for transcripts or cell/nucleus boundaries.
addParquetPathToMeta	Add parquet paths to metadata for transcripts, polygon, or cell/nucleus boundaries.
csvToParquetPaths	If transcripts or polygon is expected to be loaded, write a parquet file to the current data download (if not already), and return the file path to .parquet
readCosmxSXE	Load data from a Nanostring CosMx experiment
readMerscopeSXE	Load data from a Vizgen MERSCOPE experiment
readSeqfishSXE	Load data from a Spatial Genomics seqFISH experiment
readStarmapplusSXE	Load data from a STARmap PLUS experiment
readXeniumSXE	Load data from a 10x Geonomics Xenium experiment