Racon command line with paired-ends Illumina reads

Hi all,

I have a draft assembly using long reads only with Flye of a small bacterial genome (820,000 bp).I would like to improve this assembly with paired-end Illumina reads using Racon.

However, in the command line of Racon, I don’t see how I can enter both Illumina files (R1.fastq and R2.fastq).

racon [options …] <sequences> <overlaps> <target sequences>

Could I have some help, please?

Thank you!!

Audrey