R1: forward R2: reserve
DATA: RNA-Seq data
i used trimmomatic for paired-end reads. I get 4 outputs. sample.R1.trimmed.fastq, sample.R2.trimmed.fastq, sample.R1.unpaired.fastq , sample.R2.unpaired.fastq,
Now i want align these files with STAR-Aligner against the reference genome hg38. Should i run STAR without unpaired reads ? or should I run with the unpaired output and run STAR for the unpaired reads as single-end data ?