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Last week, we ran our first Ti plate with the signal processing during the run (vs. doing only image collection then signal afterwards). The images were all collected properly and looked likel signal processing was fine until ~step 130 where it caused the SW to crash and kick out to the adminrig login screen with the red flashing light. I logged back in and took the images and did runAnalysisPipe and everything was fine. Any similar experience for others?
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What version of the Newbler pipeline do you have? -
we're running 2.0.01.12. We've recently noticed too that the signal processing is not completing (i.e. no Wells tab/information) so we have to do the signal processing on the datarig (same SW but no problems).Comment
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I was hoping someone else would reply with a more authoritative answer. However, I have a vague recollection from a local next gen meeting of someone mentioning this was a known issue with a recent Newbler update (hence my question about which version you were using).
I'd suggest you check with your Roche contact to see if this is the case.Comment
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Differential Expression and Data Visualization: Recommended Tools for Next-Level Sequencing Analysis
After covering QC and alignment tools in the first segment and variant analysis and genome assembly in the second segment, we’re wrapping up with a discussion about tools for differential gene expression analysis and data visualization. In this article, we include recommendations from the following experts: Dr. Mark Ziemann, Senior Lecturer in Biotechnology and Bioinformatics, Deakin University; Dr. Medhat Mahmoud Postdoctoral Research Fellow at Baylor College of Medicine;...05-23-2023, 12:26 PM -
Continuing from our previous article, we share variant analysis and genome assembly tools recommended by our experts Dr. Medhat Mahmoud, Postdoctoral Research Fellow at Baylor College of Medicine, and Dr. Ming "Tommy" Tang, Director of Computational Biology at Immunitas and author of From Cell Line to Command Line.
Variant detection and analysis tools
Mahmoud classifies variant detection work into two main groups: short variants (<50...05-19-2023, 10:03 AM -
With new tools and computational resources being released regularly, it can be hard to determine which are best suited for the analysis process and which older tools continue to be maintained. In an effort to assist the sequencing community, we interviewed three highly skilled bioinformaticians about their recommended tools for several important analysis applications.
Quality control and preprocessing tools
“Garbage in, garbage out” is a popular...05-16-2023, 10:11 AM
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