which tool is used for separating forward and reverse from paired end fastq

Question

[ranjini.shakthi]

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.

[Pierre Lindenbaum]

how can we know what the input looks like ?

[cvu]

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.

[drikaul]

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