User: eoin

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eoin10
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2 months, 1 week ago
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9 months, 4 weeks ago
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e***@ualberta.ca

Posts by eoin

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Splitting a fasta file on the basis of header barcodes
... Hi folks, Having a bit of a brain fart, I'm sure there's a very simple solution to this: I have a fasta file containing reads from 48 different samples, and containing a barcode in the header line: >10_13 M01383:135:000000000-A7LW3:1:1101:16875:1408 1:N:0:1 orig_bc=GTACATACCGGT new_bc=GTACA ...
fasta dna-seq rna-seq written 6 months ago by eoin10 • updated 6 months ago by glihm530
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Comment: C: Question: Mean and SD read length from a range of fastq files
... Perfect. thank you so much. I had tried a loop but left out echo thanks a lot ...
written 9 months ago by eoin10
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Comment: C: Question: Mean and SD read length from a range of fastq files
... thank you for your answer Pierre!! This code will give us the total number of reads, their mean, and SD. But i think I wasn't clear in my post; what I need is to get the mean and SD read length from each *individual* .fastq file within in the directory. So an example of the output - File Name M ...
written 9 months ago by eoin10
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Question: Mean and SD read length from a range of fastq files
... Hi all, I'm trying to write some code to generate mean read length data from a range of fastq files. awk '{if(NR%4==2) print NR"\t"$0"\t"length($0)}' HG1.fastq > readLength.txt i've got as far as here from looking through other posts and trying to improve but i'm stuck on a couple of things. ...
fastq awk sed sequencing written 9 months ago by eoin10 • updated 8 weeks ago by Biostar ♦♦ 20

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