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.