Connecting Demultiplexing

Demultiplexing is a data generation step similar to instruments that write data. Data is read from Illumina sequencer run directories, possibly from the ${LZ}-INGESTED “shadow” landing zone directory. Usually, the bcl2fastq2 tool by the vendor Illumina is run in a custom wrapper script. The wrapper script should write a marker file indicating the completion of the demultiplexing process.

The RODEOS Ingest software comes with built-in support for our software package Digestiflow but its implementation is generic and also allows custom demultiplexing scripts with custom marker file names.