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Unable to read the merged dataset through R #2

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PeterZZQ opened this issue Dec 12, 2022 · 0 comments
Open

Unable to read the merged dataset through R #2

PeterZZQ opened this issue Dec 12, 2022 · 0 comments

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@PeterZZQ
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Hi,

I downloaded the merged dataset (covid19_datasets.tar.gz) from the website (https://atlas.fredhutch.org/fredhutch/covid/), but I'm unable to read the datafile into SingleCellExperiment through R. I used

Read10X_h5(filename="covid19_datasets.tar.gz")

but it returns

Error in `[[.H5File`(infile, paste0(genome, "/data")) : 
  An object with name active.ident/data does not exist in this group

I was also unable to read all the hdf5 files on the website too with Read10X_h5, it gave me the same error. May I know how to fix it? My Seurat version is 4.1.1, and my R version is 4.2.0.

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