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Illumina / interop

C++ Library to parse Illumina InterOp files
http://illumina.github.io/interop/index.html
GNU General Public License v3.0
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Way to get all indexes from python #305

Closed hotsoupisgood closed 1 year ago

hotsoupisgood commented 1 year ago

Hi, I would like to get all the determined and undetermined indexes using the python library but I am not seeing a way to do this. Is there something that I might be missing?

ezralanglois commented 1 year ago

I am not sure what you want. Just the number of determined and undetermined?

If so, then you can use this function from interop.core: https://github.com/Illumina/interop/blob/3178e084f6385fd6e3bfc82e8b121531929cdcad/src/ext/python/core.py#L500

hotsoupisgood commented 1 year ago

I think that function contains what I am looking for. I think converting to the indexing table is what I am looking for to get the list of barcodes.

hotsoupisgood commented 1 year ago

Hey, still having some trouble finding unknown barcodes. What I am looking for is similar to the Stats.json that gets generated in the bcl2fastq. But Just the unknown barcodes part.

ezralanglois commented 1 year ago

I missed that part. InterOp only includes known bar codes. bcl2fastq and bclconvert should produce a text file called top unknown barcodes (not the exact name).

hotsoupisgood commented 1 year ago

Ok, thanks!