Forum: Pacific Biosciences
06-07-2014, 12:39 PM
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Replies: 2
Views: 3,572
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Forum: Pacific Biosciences
06-07-2014, 12:35 PM
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Replies: 2
Views: 3,572
Well I figured out the problem -- the .XML file...
Well I figured out the problem -- the .XML file is written for SMRT portal v 2.0 and puts together protocols that no longer exist in the current version of SMRT portal. So it seems that the ability...
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Forum: Pacific Biosciences
06-06-2014, 05:03 PM
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Replies: 2
Views: 3,572
HGAP Advanced Protocol
I'm trying to install the HGAP_Assembly_Advanced.1 protocol - I added the necessary .XML file, but when I run the SMRT portal, I'm unable to make any selections on parameters. Wondering if anyone...
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Forum: Pacific Biosciences
06-06-2014, 08:18 AM
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Replies: 4
Views: 3,866
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Forum: Sample Prep / Library Generation
06-05-2014, 06:56 PM
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Replies: 0
Views: 1,464
powerclean Pro
Anybody have experience in comparing powerclean from MoBio with their new powerclean Pro kit? I'm hoping they produce DNA of the same quality, but I was told that only the regular kit has been...
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Forum: Pacific Biosciences
06-05-2014, 06:50 PM
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Replies: 4
Views: 3,866
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Forum: Pacific Biosciences
06-04-2014, 03:25 PM
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Replies: 4
Views: 3,866
overlapInCore using up all RAM
I have been running RS_HGAP_Assembly.2 in SMRT portal and the job has been failing at the overlapInCore step. I was able to solve the problem by changing the nproc from 64 down to 24 so it would not...
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Forum: Pacific Biosciences
06-04-2014, 03:18 PM
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Replies: 5
Views: 4,290
Thanks for the reply. I'll check with the seq....
Thanks for the reply. I'll check with the seq. center. We are trying again using gDNA that has been purified by a Qiagen Tip 20/G and then with powerclean from MoBio. Hopefully that will do the...
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Forum: Pacific Biosciences
05-23-2014, 08:20 AM
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Replies: 5
Views: 4,290
Thank you for the reply! You did magbead...
Thank you for the reply! You did magbead cleanup of the SMRTbell library? I have been submitting samples to a sequence center, so unfortunately I don't have much control over what gets done, or...
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Forum: Pacific Biosciences
05-22-2014, 11:07 AM
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Replies: 5
Views: 4,290
Problems with gDNA prep for PacBio
Our goal is to prep genomic DNA from S. cerevisiae to make either a 10kbp or 20kbp library. We have been having trouble with sample quality (either contamination or damage?) resulting in short...
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