https://bioinformaticsonline.com/snippets/view/43251/bam-to-fastq-convert? https://bioinformaticsonline.com/snippets/view/43251/bam-to-fastq-convert Fri, 13 Aug 2021 03:51:18 -0500 https://bioinformaticsonline.com/snippets/view/43251/bam-to-fastq-convert #Long reads bedtools bamtofastq -i input.bam -fq output.fastq #For paired-end reads: samtools sort -n input.bam -o input_sorted.bam # sort reads by identifier-name (-n) bedtools bamtofastq -i input_sorted.bam -fq output_r1.fastq -fq2 output_r2.fastq]]> Jit