Linux Command for joining left & right hand reads

[ddaneels]

I know that there's a tool in Galaxy called 'Fastq Joiner' in which 2 fastq files (one with left & one with right hand reads) are joined together.
Is there a simple Linux command to do the same thing? Something with the 'grep' command perhaps?

[Heisman]

I don't quite understand. Would the "cat" or "paste" command be sufficient?

[ddaneels]

Apologies, instead of 'grep' I meant 'paste'. Like you said I tried paste file1.fastq file2.fastq

But I'm not sure that this command does the same as the 'fastq joiner' tool in Galaxy

[SeekAnswers]

You'd need a small perl script to read in the sequence identifiers to imitate the galaxy joiner. I don't think there's a simple linux command unless your files are both in the same order.