User: Denis

gravatar for Denis
Denis30
Reputation:
30
Status:
New User
Location:
Russia, MSU
Last seen:
5 hours ago
Joined:
4 years, 4 months ago
Email:
s**********@gmail.com

about me

Posts by Denis

<prev • 33 results • page 1 of 4 • next >
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Comment: C: Number of bases with a certain quality in FASTQ file
... Should i add something like this `tr -d '\n'` somewhere in the pipe to remove new line characters? `echo \n | awk '($0>="?")'` results in `n` ...
written 1 day ago by Denis30
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Comment: C: Number of bases with a certain quality in FASTQ file
... Hi genomax! Thanks a lot! Now it's clear. ...
written 1 day ago by Denis30
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Comment: C: Number of bases with a certain quality in FASTQ file
... Thanks! But from where `awk` may know that for example "=" is less than "?" ? How can it compare just two characters? ...
written 1 day ago by Denis30
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Comment: C: Number of bases with a certain quality in FASTQ file
... We often use the number of bases with quality score >=30 as a quick assay of data quality. Besides, our sequencing facilities commonly use that statistic. ...
written 1 day ago by Denis30
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Number of bases with a certain quality in FASTQ file
... Hi, I'm wondering is there a convenient way to count quantity of bases in `FASTQ` file with `Phred` quality score equal or higher then 30? Thanks! ...
next-gen sequencing written 1 day ago by Denis30 • updated 1 day ago by h.mon16k
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Comment: C: Demultiplexing of the Illumina PE data
... Hi genomax! Much appreciated for your help and providing feasible solution. ...
written 7 days ago by Denis30
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Comment: C: Demultiplexing of the Illumina PE data
... Yes, sure. The primers are at the 5' end of forward and reverse reads. ...
written 15 days ago by Denis30
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Comment: C: Demultiplexing of the Illumina PE data
... It's a custom internal PCR primers. ...
written 16 days ago by Denis30
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Comment: C: Demultiplexing of the Illumina PE data
... Hi fin swimmer! Many thaks for your reply and post editing. No. I'm working with Illumina amplicon data. So i'd like to extract pairs that contain PCR primers and discard all the other read pairs. ...
written 16 days ago by Denis30
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Comment: C: Demultiplexing of the Illumina PE data
... Hi gb, Thanks for reply. It seems sabre doesn't support dual index Illumina technology. Am i right? Have to check cutadapt documentation. ...
written 16 days ago by Denis30

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