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Forum: Bioinformatics 01-05-2016, 11:44 AM
Replies: 347
Views: 185,363
Posted By salamay
Hi Brian, Would you mind explaining the the...

Hi Brian,

Would you mind explaining the the sliding window option for quality trimming (qtrim) in bbduk? How big is the window and is this similar to trimmomatic's sliding window approach? I...
Forum: Bioinformatics 07-03-2014, 10:04 AM
Replies: 347
Views: 185,363
Posted By salamay
That is extremely informative Brian. Thank you...

That is extremely informative Brian. Thank you very much, I am very pleased with the bb suite of programs.
Forum: Bioinformatics 07-03-2014, 09:48 AM
Replies: 347
Views: 185,363
Posted By salamay
What would bbduk do if for instance the right and...

What would bbduk do if for instance the right and left ends were high quality but a region in the middle of the read was low quality? For instance:

40, 40, 40, 40, 2, 2, 2, 40, 40, 40

Your...
Forum: Bioinformatics 07-03-2014, 07:53 AM
Replies: 347
Views: 185,363
Posted By salamay
Hi Brian, Can you elaborate on what you mean...

Hi Brian,

Can you elaborate on what you mean by the quality trimming is done using the Phred algorithm and how this is more accurate than naive trimming?

Thank you
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