Issue 944: Peak area plotting still deceiving when transforms are applied to the chromatograms

Assigned To:Brendan MacLean
Opened:2023-03-23 04:15 by Brendan MacLean
Changed:2023-03-23 07:46 by Nick Shulman
Resolved:2023-03-23 07:46 by Nick Shulman
Resolution:Not Repro
2023-03-23 04:15 Brendan MacLean
Title»Peak area plotting still deceiving when transforms are applied to the chromatograms
Assigned To»Nick Shulman
Here at the Dortmund course, one of the instructors created a tutorial that had participants switch to Savitzky-Golay smoothing and then adjust peak boundaries based on this smoothing. While I was explaining why this was a bad idea, I was looking at a small molecule chromatogram where the integration boundaries appeared to be too narrow. I selected the single transition for the molecule and Skyline plotted the background rectangle based on the smoothed data showing it consuming around 1/3 of the peak area. In reality, the rectangle was very close to baseline in the Interpolated smoothing. So, this display was unnecessarily alarming.

I wonder if we should just not be showing these shaded colors in transformed views, since they are never really representative of the areas they are intended to highlight.

At the very least, we should always show the background area at the height of the true background rectangle.

2023-03-23 07:46 Nick Shulman
resolve as Not Repro
Assigned ToNick Shulman»Brendan MacLean
Can you repro this with Skyline-daily?
It sounds like you are describing the behavior that was fixed in Skyline-daily back in December: