bases2fastq-dx is a DNAnexus applet that can be used to build a DNAnexus app and workflow to demultiplex the raw data produced by the Element AVITI™ System using the Bases2Fastq Software. Bases2Fastq processes sequencing data and converts base calls into FASTQ files. During a sequencing run, the Element AVITI™ System records base calls and associated quality scores (Q-scores) in bases files. Bases2Fastq converts the bases files into the FASTQ file format for secondary analysis with the FASTQ-compatible software of your choice.

• The Bases2Fastq Documentation has detailed execution information for changing parameters.
• The Run Manifest Documentation has detailed information for resetting demultiplexing settings, controlled by the input Run Manifest.

Bases2fastq-dx enables you to run Bases2Fastq on in a DNAnexus project.

dx build commands

dx build -f bases2fastq/

Run the applet

dx run bases2fastq-dx -i analysis_directory={your-projectid}:/{path to run directory}

License

Bases2Fastq use subject to license available at go.elembio.link/eula.