fastq_reads

Count fastq reads

Introduction

• This is a real simplistic script to count fastq reads, literally count the lines of fastq file and divide by 4 (as each sequencing read in fastq file is represented by 4 lines including the identifier,sequence letter, +/- strand and quality values).

Usage

% ./fastq_reads.sh FASTQFILE

• FASTQFILE is a fastq file ends with .fastq
• What is a fastq file? Please read: https://en.wikipedia.org/wiki/FASTQ_format
• The output file will be named as FASTQFILE-fastq_reads