Enveomics collection

FastQ.maskQual.rb

Masks low-quality bases in a FastQ file.

    See source code, Artistic license 2.0.

§ References

    Rodriguez-R & Konstantinidis, 2016, PeerJ Preprints.

§ Requirements

• Ruby >= 2.0.

§ Usage

FastQ.maskQual.rb --input in_file --output out_file [opts]

§ Arguments

Input*

 --input in_file  Path to the FastQ file containing the sequences. Supports compression with .gz extension.

Output*

 --output out_file  Path to the output FastQ file. Supports compression with .gz extension.

Qual

 --qual integer  Minimum quality score to allow a base.

Offset

 --offset integer  Q-score offset.

Fasta

 --fasta   Output sequences in FastA format.

Quiet

 --quiet   Run quietly.

* Mandatory.