Unique Molecular Identiifiers in the SQK-PCB114.24 kit

[calcutt]

Ask away!

The PCR-cDNA barcoding kit, incorporates UMIs with the strand switching primer into the strands which are then sequenced. Is there a point in this pipeline that takes these UMIs into account to reduce PCR bias in the gene/transcript counts?

[nrhorner]

Hi @calcutt

UMI information is not currently handled by the workflow.

Cheers,

Neil

[fgponce]

Does the UMI interfere in any way with pychopper that IDs primer/adapters at both ends to detect full length reads?

I'm assuming I need to no trim at basecalling and demux steps for pychopper to be useful. But do we need t o trim off the UMI somehow since its random sequence not a known primer/adapter.

How do I disable pychopper to see if its making a difference?

R