Hi All,
Since starting at Illumina recently, one of my first projects was to write sample scripts to parse the InterOp files. We receive requests for how to parse the binary files quite often and having working code is a bit more helpful than the previous solution of sending a document describing the binary formatting.
In any case, I've built a package in R that can import the InterOp files into an R session (for visualization) and can also write out the data to flat files. I also have perl scripts that just write out the data to flat files.
I wrote these a few months ago, and we've tested it internally and have found it to be quite useful. After I came across a couple of other InterOp parsing threads here, I asked my manager for approval to send it out to people who are in need of accurate InterOp parsing outside of SAV. If you have this need, please PM me and I will send you my email address, or email me directly via SEQAnswers. With enough requests, I may even receive approval to post it to github.
Officially, these are *unsupported*, so please do not call tech support referring to these scripts. They will have no idea what you are talking about. Instead, email me with questions or bugs and I'll do my best to straighten you out.
Cheers,
mchen1
Since starting at Illumina recently, one of my first projects was to write sample scripts to parse the InterOp files. We receive requests for how to parse the binary files quite often and having working code is a bit more helpful than the previous solution of sending a document describing the binary formatting.
In any case, I've built a package in R that can import the InterOp files into an R session (for visualization) and can also write out the data to flat files. I also have perl scripts that just write out the data to flat files.
I wrote these a few months ago, and we've tested it internally and have found it to be quite useful. After I came across a couple of other InterOp parsing threads here, I asked my manager for approval to send it out to people who are in need of accurate InterOp parsing outside of SAV. If you have this need, please PM me and I will send you my email address, or email me directly via SEQAnswers. With enough requests, I may even receive approval to post it to github.
Officially, these are *unsupported*, so please do not call tech support referring to these scripts. They will have no idea what you are talking about. Instead, email me with questions or bugs and I'll do my best to straighten you out.
Cheers,
mchen1
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