merging fastq paired ends

Question

[HT]

Hello,

I want to merge fastq pair ends (R1 and R2) files to obtain one file that i can run on seqtk to end up with the fasta file of my sequenced isolate. Only problem is am not sure hot to merge R1 and R2 files. what is the best way to do it ?

Thank you

Answer 1

[GenoMax]

See my answer (and others in that thread) : A: Concatenating fastq.gz files across lanes