Failed Index Read - how to restart?

[coleen_2]

I have a failed index read on a HiSeq run. I want to put new index read reagents on and go back to the beginning of the index read. However, my run has completed, and the instrument software won't let me choose where to resume the run. Does anyone know a way around this?

[HESmith]

If it's a paired-end read, there's no way to salvage it after read two b/c the index primer anneals to the first strand. If it's a single-end read and you've already removed the flow cell, then you'll have to repeat the sequencing b/c the cluster positions won't align properly to the previous run. Use the rehybridization kit on the cBOT and go from there.

If it's single read and still on the machine, I think you'd need to remove all of the information (from log files, data folders, etc) for the index read, load the reagents, then restart that run. Unlike the GA, the recipe steps are not displayed during the run so it's more difficult to fiddle with the parameters.

Good luck,
Harold

[VStrand]

Originally Posted by coleen_2

I have a failed index read on a HiSeq run. I want to put new index read reagents on and go back to the beginning of the index read. However, my run has completed, and the instrument software won't let me choose where to resume the run. Does anyone know a way around this?

You can also email illumina's customer support at TechSupport@illumina.com, they tend to be pretty good with their own systems, or call 800.809.4566.