running amplicons together with non amplicon lanes

[dina]

Hi,
I wanted to know whether is is ok to use one plate in which some regions are for amplicons and others are not. If so, what kind of run should it be? Image processing only ?

[RCJK]

Hi Dina,

If the amplicons are in a separate region of the plate from the shotgun libraries, it's fine. You'll have to do the signal processing twice, once for each library type.

Hope this helps.

[pmiguel]

There were instructions on the my454 site http://454.com/downloads/my454/docum...Experiment.pdf for creating a new choice in the 454 run client. The new choice is:

“Image Processing Only Amplicons”

So I guess the question becomes, if one is doing a run with regions containing amplicons and other regions containing non-amplicons, should one choose “Image Processing Only Amplicons” or “Image Processing Only”.

Probably doesn't matter, since the console server will only do image processing either way, what happens past that point is up to scripts running on whatever cluster is used to do the downstream processing.

--
Phillip