bam2fq

! /bin/bash

$ -l mem=30G,time=50::

$ -j y

$ -N bam2fq

$ -cwd

source ~/.bashrc

for i in $(seq 1 96)

do

samtools bam2fq /ifs/scratch/L001_C{i}.fastq

done

Reference:
https://sites.google.com/site/wiki4metagenomics/tools/samtools/converting-bam-to-fastq