Re: Questions about CAMERA and psgroup
Reply #1 –
It is not easy to tell if you have a problem or not. It is normal that in the beginning of the chromatograms you have a lot of ions that gets grouped together because they are all co-eluting and probably also correlated because of ion suppression.
You can never "trust" CAMERA. It is a great help but you need to make sense of it in the end. I don't understand why you have set cor_exp_th=0.4? That seems so low as to be useless... So that is the first thing I would change and see if it helps.
You might find the discussion here useful: viewtopic.php?f=24&t=278.
When choosing calcCiS and calcCaS you need to consider the number of samples you have. Also "lpc" might be better than "hcs".
For features that you believe are erroneously split you should go through each step of the CAMERA process and see when it gets split. You can simply use getPeaklist after each step and check what happened to the ions you are not satisfied with.