Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] Cross-linking CV (#2)

[Lutz F. <not...@gi...>]

Some points for thought about Cross-linking site localisation
 * Is a psm/peptide-level site localisation enough
 * the actual residue pair (as in residue 255 of protein a is linked to residue 136 of protein2) might have different site-localisation  probability then the links on each supporting psm. 
  * e.g. applying occams razor and ignoring site localisation on PSM level beyond the simple "it could be this or that").

if we want to store both level of information we could duplicate the peptide-level scores for a protein level score on each PSM, or store these as a list of cvParams on each protein. 
We could also require, that only one of these cases are permitted to be stored and then we could just go with what we have - at least i think it would do.


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