Where to find seqFISH+ and other ready-to-use datasets?
Checkout https://github.com/RubD/spatial-datasets to find already
preprocessed datasets
Where to find other spatial datasets?
Checkout https://www.spatialomics.org/SpatialDB/ to download
expression matrix and location information
How to automatically download tutorial datasets? (merFISH example)
# choose your directory
my_working_dir = getwd()
# standard download data to working directory
getSpatialDataset(dataset = 'merfish_preoptic', directory = my_working_dir)
# use wget to download data to working directory (much faster)
getSpatialDataset(dataset = 'merfish_preoptic', directory = my_working_dir, method = 'wget')
# avoid certification issues with wget
getSpatialDataset(dataset = 'merfish_preoptic', directory = my_working_dir, method = 'wget', extra = '--no-check-certificate')
# see download.file for more options
?download.file