What is a good run? Do you have a QC to determine that.

[WhiteSeal]

Alright, I was in a different thread and at one point the discussion went slightly of topic but it was clear to me that everyone had a different opinion on what is a good MiSeq/HiSeq run. So in a Good Mythical Morning sense "let's talk bout that".

In your own opinion what makes a good run? Also do you have a specific QC to determine that.

[Baseless]

A ok run is when its within manufacturer specs both output and base quality wise. A good run is slightly better. And an excellent run is when no one complains about data afterwards.
Our best so far was ~360GB off a HiSeq cell 2x101+index.

[Zaag]

High percentage Q30 or higher bases
High amount of data
High percentage reads that reach full length

[niroshan]

This may help you. Go to this page:

http://support.illumina.com/training/online-courses/sequencing.html

and click on "MiSeq: Does My Run Look Good?"