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cellRanger 2.0 to Seurat 3.1.2

Hi, anybody know if data from cellRanger 2.0 are still readable with Seurat 3.1.2? I am getting an error, I saw several threads but still no luck. Thanks S.

rna-seq software error
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written by cge • cge

Yes, it is. Please add details. "I am getting an error" is not a reproducible error description. Show code and exact error messages please.

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written by ATpoint ATpoint

Hi, thank you for you answer. Here the code and error:

mat <- Read10X(data.dir = dataDir)
Error in dimnamesGets(x, value) :  
 invalid dimnames given for “dgTMatrix” object
In addition: Warning messages: 1: In readLines(barcode.loc) : line 15647540 appears to contain an embedded nul
2: In readLines(barcode.loc) : incomplete final line found on '/data/barcodes.tsv'
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written by cge • cge

2 answers

As the error says, you have an incomplete line. That probably means that there was an error in transferring the file.

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written by igor igor

Thanks! I downloaded again the file and it worked. S.

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written by cge • cge

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