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Old 08-07-2017, 06:26 AM   #1
cement_head
Senior Member
 
Location: Oxford, Ohio

Join Date: Mar 2012
Posts: 253
Exclamation How to "chop" a large FASTQ PE file in half?

Hello,

I hesitate to use the following terms: "split", "partition", "trim" - because they all have special connotations.

What I'd like to do is to take a large FASTQ file of PE reads and cut the file into two approximately equal halves. However, I want to do it in such a manner that a given file does not have only one half of a pair of a PE read group. In other words, I want to insure that when the file is halved, or split, that no PE reads are separated.

For example, if I have a file with 11 PE reads, I do NOT want 5 reads in one file and 6 reads in another.

Will FASTQ Splitter work for what I want?

- Andor
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