BCL Conversion

The DRAGEN BCL conversion is designed to output FASTQ files that match bcl2fastq2 v2.20 output.

DRAGEN BCL Convert supports the following features.

Demultiplexes samples by barcode with optional mismatch tolerance.
Supports adapter sequence masking or trimming with adjustable matching stringency.
Supports UMI sequence tagging and optional trimming.
Supports output of FASTQ files for index reads.
Combines all lanes to the same FASTQ output files.
Supports high sample count (100,000).
Supports UMI sequences in index reads.
Eliminates skew as the result of adapter sequence trimming by using the MinimumAdapterOverlap setting.
Outputs metrics for demultiplexing, quality scores, adapter trimming, unmapped barcodes, and index-hopping detection.
Converts a subset of tiles specified by regular-expressions using an allow list, a block list, or both.

BCL Metrics

DRAGEN BCL Convert produces the following metrics in CSV format to the Reports / output subfolder. In addition, the sample sheet and RunInfo.xml file used during conversion is copied into the Reports / output subfolder.