I have python scripts that uses invitae illuminate module to parse and process the InterOP bin data. We recently switched to NovaSeq and unable to use invitae to parse the NovaSeq data. I was wondering if anyone has any experience to deal with that. I tried to use the illumina InterOP , but I can't make a head or tail out of its python documentation. I need to read the binary data from each metrics file and parse each to a dataframe for further data manipulation. Ideally, if anyone can find out a workaround with illuminate , it will avoid a significant re-write.
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Have you tried the new interop tutorials? They seem straightforward enough (at least on first glance): ipynb series: https://github.com/Illumina/interop/tree/master/docs/src
It seems like the benefit of using Illumina's interop python bindings will get you better novaseq support going forward, than to rely on a third-party illuminate that was created before NovaSeq existed...
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