Re: [Psidev-ms-dev] TraML extension to support inclusion and exclusion lists

[Matt C. <mat...@va...>]

Hi Andreas,

I argued several weeks ago that TraML should perhaps be TarML to include 
non-SRM use cases, but it was a hypothetical suggestion. It will need 
someone in the group who understands those use cases to advocate for it.

-Matt


Andreas Bertsch wrote:
> Dear TraML enthusiasts,
>
>
> during a developer meeting of the OpenMS developers the need for  
> specifying inclusion and exclusion lists came up. This is a frequently  
> asked feature to produce such lists for different experiments and from  
> various data sources. The files used to encode and transfer such  
> information to the mass spectrometer's acquisition software are mostly  
> csv and tsv file formats, similar to those of transition  
> specification. Of course different ones for different vendors or even  
> different instruments.
>
> The information encoded in TraML is very similar to that needed for  
> inclusion and exclusion lists. Especially precursors, peptides and  
> proteins and information about how they were selected, and so on.
> It seems to me that the changes necessary for TraML to also support  
> inclusion and exclusion lists are very small. (Except that the format  
> name is a bit misleading, maybe TarML, for targeted experiments ;) )
>
> I'll try to attend the phone conference today.
>
> Cheers,
> A.