In our second webinar of 2025, over 400 participants joined Brendan MacLean (Skyline Principal Developer) and Eduard Sabidó (Proteomics Researcher) on September 19 as they presented the newest tutorial in Skyline, DIA with FragPipe, DIA-NN and Skyline.

Eduard presented a workflow that combined FragPipe, DIA-NN and Skyline for spectrum-centric analysis of data-independent acquisition (DIA) datasets from the Orbitrap Astral.

The webinar concluded with a great Q&A session which generated a number of great questions for Eduard and Brendan to address various considerations of visualizing data in Skyline generated through this workflow.

-- the Skyline Team

Brendan MacLean (Principal Developer)

Presentation

Eduard Sabidó (Proteomics Researcher)

Presentation Tutorial

Data (4 GB)

Dear Skyline Users,

Join us for an all new online webinar on Tuesday, September 16, 2025 at 8:00am (Pacific Time). This webinar will explore combining FragPipe, DIA-NN and Skyline for spectrum-centric analysis of data-independent acquisition (DIA) datasets from the Orbitrap Astral.

Webinar #26: DIA with FragPipe, DIA-NN and Skyline

[registration closed]

• Using FragPipe interface for running DIA searches with DIA-NN
• Exploring the FragPipe main results
• Auto-generating a Skyline document for results visualization

This webinar will include a brief introduction from Brendan MacLean, Skyline Principal Developer, and a presentation and tutorial walk-through by Eduard Sabidó from the Proteomics Unit at the Universitat Pompeu Fabra and the Centre for Genomic Regulation. Eduard is the lead organizer and instructor of the fall EMBO Practical Course on Targeted Proteomics, now in its 12th year.

Join us, and learn how to combine FragPipe, DIA-NN and Skyline for the analysis of your DIA data.

--Skyline Team

  Presenters

Brendan MacLean
(Principal Developer)

Eduard Sabidó
(Proteomics Researcher)