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The example file does not exist. #9453

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yoyoong opened this issue Nov 6, 2024 · 0 comments
Open

The example file does not exist. #9453

yoyoong opened this issue Nov 6, 2024 · 0 comments

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@yoyoong
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yoyoong commented Nov 6, 2024

Hello, the Nanostring polygons.csv file used in the spatial transcriptomics analysis example on the Seurat website (https://satijalab.org/seurat/articles/seurat5_spatial_vignette_2#human-lung-nanostring-cosmx-spatial-molecular-imager located at https://www.dropbox.com/s/hl3peavrx92bluy/Lung5_Rep1-polygons.csv?dl=0 has been deleted. Could you please re-upload it, thank you!

In this vignette, we load one of 8 samples (lung 5, replicate 1). We use the [LoadNanostring()](https://satijalab.org/seurat/reference/readnanostring) function, which parses the outputs available on the public download site. Note that the coordinates for the cell boundaries were provided by Nanostring by request, and are available for download [here](https://www.dropbox.com/s/hl3peavrx92bluy/Lung5_Rep1-polygons.csv?dl=0).

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