I want to use Kallisto | bustools workflow for single-cell RNA-seq analysis. However, I have paired-end fastq files where each sample has two files R1 and R2 (forward and reverse). But, it seems that Kallisto | bustools accepts a single file of sequences for each sample.
I was wondering if there is any way to run Kallisto | bustools workflow for fastq files with two files R1 and R2?
I would highly appreciate any advice and help in this regards.