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.
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
GGGTGATGGCCGCTGCCGATGGCGTCAAATCCCACCAAGTTACCCTTAACAACTTAAGGGTTTTCAAATAGA
+SRR001666.1 071112_SLXA-EAS1_s_7:5:1:817:345 length=72
IIIIIIIIIIIIIIIIIIIIIIIIIIIIII9IG9ICIIIIIIIIIIIIIIIIIIIIDIIIIIII>IIIIII/
@SRR001666.2 071112_SLXA-EAS1_s_7:5:1:801:338 length=72
GTTCAGGGATACGACGTTTGTATTTTAAGAATCTGAAGCAGAAGTCGATGATAATACGCGTCGTTTTATCAT
+SRR001666.2 071112_SLXA-EAS1_s_7:5:1:801:338 length=72
IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII6IBIIIIIIIIIIIIIIIIIIIIIIIGII>IIIII-I)8I
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