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Old 10-14-2016, 07:54 AM   #1
Ali May
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Location: Netherlands

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Default PacBio Sequel demultiplexing

Hello,

Anyone who has experience with demultiplexing Sequel data via SMRT link command line options?

What I've done so far is to follow the "Barcode splitting for command-line analysis (SMRT Analysis v3.1)" section in

https://github.com/PacificBioscience...ki/BAM-recipes

and then use the demultiplex.py at https://github.com/PacificBiosciences/SMRT-Link

But when I do assembly with the demultiplexed data the results I get are just strange and not comparable to the assembly results I get from the same machine without demultiplexing. So I'm guessing that I'm doing something wrong.

Thanks,
Ali
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Old 10-14-2016, 09:29 AM   #2
GenoMax
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Reach out to PacBio tech support directly. You may get a more rapid response that way. Sequel is so new that not many on this site have worked with that data as yet.
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Old 10-14-2016, 10:25 AM   #3
Ali May
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I tried that already, have been waiting for three days now. I guess they're very busy for the upcoming software and chemistry release.
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Old 10-14-2016, 10:57 AM   #4
GenoMax
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Ah well. People from PacBio do participate here so there is a chance you will see something before end of today (California, pacific time).
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Old 12-06-2016, 10:43 PM   #5
phenotype
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Hi Ali,

We have a record of your case with PacBio tech support. It is case #52474 and was closed on 10/21.
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