oicr-gsi/dashi

bcl2fastq.index_summary:: What are Illumina HiSeq X 'unknown'

Closed this issue · 1 comments

slazicoicr commented

Most sequencers show all their unknown indices by their nucleotide sequence. HiSeq X sequencers (E003) show an index labelled as unknown:

image

This should not be, as all unknown indices should have a nucleotide sequence (even if it is NNNNNNN). This seems to occur on only a subset of lanes.

slazicoicr commented

This problem is better addressed at the ETL stage.