Question: which tool is used for separating forward and reverse from paired end fastq
0
gravatar for ranjini.shakthi
2.1 years ago by
ranjini.shakthi0 wrote:

Hi I have a paired end fastq file downloaded from NCBI, I need to separate these file as a forward and reverse fastq files(like.,R1.fq ,R2.fq). Kindly suggest me some tools for the same.

assembly • 1.4k views
ADD COMMENTlink written 2.1 years ago by ranjini.shakthi0
4

how can we know what the input looks like ?

ADD REPLYlink modified 2.1 years ago • written 2.1 years ago by Pierre Lindenbaum122k
4

use SRA Toolkit https://www.ncbi.nlm.nih.gov/books/NBK158900/ and use fastq-dump, for example fastq-dump -I --split-files SRR390728 to split paired end reads.

ADD REPLYlink written 2.1 years ago by cvu140

But this would not work on local files that haven't been downloaded from SRA, correct?

ADD REPLYlink written 9 weeks ago by drikaul10
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