User: Rob

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Rob80
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1 year, 5 months ago
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Posts by Rob

<prev • 35 results • page 1 of 4 • next >
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Comment: C: Software for Tree Visualization
... No other software since 6.3 years? ...
written 4 weeks ago by Rob80
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Comment: C: De novo pacBio genome assembly: How to polish data without quiver?
... Well, I use Canu alone, and it don't contain a polisher. I wll try to use the pacBio polisher. ...
written 3 months ago by Rob80
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De novo pacBio genome assembly: How to polish data without quiver?
... I am currently working on some de novo genome assembly with pacBio data. I used Canu for assembly but I didn't have access to quiver (or arrow) for data polishing. What can I do now? I can't find any tools for replace quiver, so I'm a little bit stuck... Thanks ! ...
quiver sequencing polishing pacbio assembly written 3 months ago by Rob80 • updated 3 months ago by Alex10
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Comment: C: Samtools: merge and mpileup vs mpileup alone for variant-calling with multiple B
... Yep, only one sample (same RG tag for each Lane) ...
written 4 months ago by Rob80
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Comment: C: Samtools: merge and mpileup vs mpileup alone for variant-calling with multiple B
... The strange things with this is that I have more coverage on a single SNPs without merge the files before. Here one example (same for all SNPs common in both methods) : Ref Alt QUAL GT DP Without merge: T C 48.0158 0/1 26 With merge ...
written 4 months ago by Rob80
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Comment: C: Samtools: merge and mpileup vs mpileup alone for variant-calling with multiple B
... But since the RG tags are identical for one sample, doesn't mpileup merge files itself? And so the coverage should be identical compared to the step with merge no? ...
written 4 months ago by Rob80
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Comment: C: Samtools: merge and mpileup vs mpileup alone for variant-calling with multiple B
... I will try more research, because yeah, that is the information I'm looking for :) So which way do you personally suggest as the best? Merge first sample with same RG tags, and do variant calling on the merged file? ...
written 4 months ago by Rob80
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Comment: C: Samtools: merge and mpileup vs mpileup alone for variant-calling with multiple B
... But what mpileup do with the 2 files informations? Since it's the same sample (with identical @RG tag), does not it merge them together too? ...
written 4 months ago by Rob80
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Comment: C: how to parse blast output using biopython
... I think you are 2 years late.. And everything about biopython is writen [here][1] [1]: http://biopython.org/DIST/docs/tutorial/Tutorial.html ...
written 4 months ago by Rob80
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Comment: C: how to parse blast output using biopython
... Biopython doesn't totally support the plain text parsing now, not enough stable, so XML is the best recommanded output for Biopython parsing. ...
written 4 months ago by Rob80

Latest awards to Rob

Voter 4 weeks ago, voted more than 100 times.
Popular Question 8 months ago, created a question with more than 1,000 views. For How to properly merge multiple runs into one bam file ?
Supporter 10 months ago, voted at least 25 times.

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