Re: [Open-ms-general] OpenSWATH assay library

[Sami P. <sam...@gm...>]

Hi George,

The protocol paper looks very good. Thank you!

BR,
Sami

2017-01-27 21:55 GMT+02:00 Rosenberger George <ros...@im...
>:

> Hi Sami,
>
> We have recently published a protocol paper on how to generate a spectral
> library for OpenSWATH using the ProteoWizard, TPP, msproteomicstools and
> OpenMS: http://www.nature.com/nprot/journal/v10/n3/abs/nprot.2015.015.html
>
> Alternatively, Skyline and specL can also generate spectral libraries for
> use with OpenSWATH.
>
> Best regards,
> George
>
> On 27 Jan 2017, at 14:28, Sami Pietilä <sam...@gm...> wrote:
>
> Hi All!
>
> I am wondering how to create assay library for OpenSWATH. I have
> mass-spectrometer data from the same sample in both data dependent and data
> independent acquisition modes. If I have understood correctly, it should be
> possible to create an assay library by using DDA data.
>
> How can assay library is generated from DDA data?
>
> Thanks
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