Program gto_fastq_info

The gto_fastq_info analyses the basic information of FASTQ file format.

For help type:

./gto_fastq_info -h

In the following subsections, we explain the input and output paramters.

Input parameters

The gto_fastq_info program needs two streams for the computation, namely the input and output standard. The input stream is a FASTQ file.

The attribution is given according to:

Usage: ./gto_fastq_info [options] [[--] args]
or: ./gto_fastq_info [options]

It analyses the basic information of FASTQ file format.

-h, --help show this help message and exit

Basic options
< input.fastq Input FASTQ file format (stdin)
> output Output read information (stdout)

Example: ./gto_fastq_info < input.fastq > output

Output example:
Total reads : value
Max read length : value
Min read length : value
Min QS value : value
Max QS value : value
QS range : value

An example of such an input file is:

@SRR001666.1 071112_SLXA-EAS1_s_7:5:1:817:345 length=72
+SRR001666.1 071112_SLXA-EAS1_s_7:5:1:817:345 length=72
@SRR001666.2 071112_SLXA-EAS1_s_7:5:1:801:338 length=72
+SRR001666.2 071112_SLXA-EAS1_s_7:5:1:801:338 length=72


The output of the gto_fastq_info program is a set of information related to the file read.

Using the input above, an output example for this is the following:

Total reads : 2
Max read length : 72
Min read length : 72
Min QS value : 41
Max QS value : 73
QS range : 33