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ElucidataInc / ElMaven

LC-MS data processing tool for large-scale metabolomics experiments.
https://resources.elucidata.io/elmaven/
GNU General Public License v2.0
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Y Axis in Peak Editor skews chromatogram #1399

Open kehj215 opened 3 years ago

kehj215 commented 3 years ago

Describe the bug When scrolling through samples in peak editor, some have a skewed, incredibly large Y axis that skews the chromatogram so no peaks (or noise) are visible.

To Reproduce Steps to reproduce the behavior:

  1. Go to bookmarked peak
  2. Click on peak editor
  3. click through samples, some (I've seen it most often with my "blanks") appear with a skewed Y axis.

Expected behavior Y axis is represented in scientific notation so peaks and noise in the chromatogram are visible.

Screenshots one of a blank with a skewed Y axis and one of a blank with an expected Y axis.

System (please complete the following information):

Additional context Add any other context about the problem here.

saif-el commented 3 years ago

@kehj215 Is it possible that the sample "blank_008" has no signal in that window? Even then, the y-axis values should not be ridiculous like that. Can you try moving the vertical slider (beside the chromatogram plot in peak-editor)? It essentially downscales the y-axis for cases when peaks of interest are too small compared to the highest intensities in the chromatogram.

kehj215 commented 3 years ago

Yes, in fact I expect there to be no peaks in the blank, but I do anticipate some noise. I tried moving the vertical slider, but it has no effect.

saif-el commented 3 years ago

Here too, can we get one of those blank samples where the issue is easily reproduced?