How to randomly subset a specific number of sequences from a large fastq file?

Question

[j.thomas93]

Hi,

So I am doing some RNA seq and I have a number of large library preps for the different conditions and replicates. In some samples there a huge differences in library size and I was hoping to just do a preliminary analysis where I randomly subset x amount of reads from the parent fastq, but I want to do it multiple times from the sample fastq to generate a more representative sample. I need the sampling to therefor be random and different for each subset

Is this possible?

Thanks in advance for any help

[AK]

Also seqkit sample by specifying --number or --proportion.

Answer 1

[benformatics]

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