More detailed statistics for trouble shooting

[samhunter]

We recently ran into a tricky problem where some primer names were accidentally left off of the SampleSheet. The preprocesslog indicated a big dropoff in the number of reads successfully assigned to sample vs identified to barcode and primer which helped tip us off to this problem, however the Identified_Barcodes listed all of the reads associated with each sample+barcode, even if the barcode wasn't listed under that sample (a significant difference in total reads listed in the preprocesslog and the Identified_Barcodes table also helped with troubleshooting). It would be very cool to have one additional table generated by preprocess which listed:

Sample	PrimersExpected	PrimersIdentified	ReadsByBarcode	ReadsByBarcodeAndPrimer
sample1	96	96	1000000	800000
sample2	48	96	1000000	50000

This would make troubleshooting issues with samplesheet formatting much easier.

[msettles]

So summarize the barcode table more consicely by sample? Matt

On Mon, Jul 10, 2017 at 3:36 PM Sam Hunter ***@***.***> wrote: We recently ran into a tricky problem where some primer names were accidentally left off of the SampleSheet. The preprocesslog indicated a big dropoff in the number of reads successfully assigned to sample vs identified to barcode and primer which helped tip us off to this problem, however the Identified_Barcodes listed all of the reads associated with each sample+barcode, even if the barcode wasn't listed under that sample (a significant difference in total reads listed in the preprocesslog and the Identified_Barcodes table also helped with troubleshooting). It would be very cool to have one additional table generated by preprocess which listed: Sample PrimersExpected PrimersIdentified ReadsByBarcode ReadsByBarcodeAndPrimer sample1 96 96 1000000 800000 sample2 48 96 1000000 50000 This would make troubleshooting issues with samplesheet formatting much easier. — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#25>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AAno5uFdwldb4KqDmP9gsHrutP03WJctks5sMqd8gaJpZM4OTgUv> .

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