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ParkerICI / premessa

R package for pre-processing of mass and flow cytometry data
GNU General Public License v3.0
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Normalizing 1 file-no before/after plots #7

Closed mleipold closed 6 years ago

mleipold commented 6 years ago

beads_before_and_after.pdf

Hi,

When normalizing just ONE file (large-ish barcoded sample that would then be debarcoded into multiple smaller samples), the "beads before and after" picture gets generated, but isn't really populated.

Please see attached PDF.

I think it's an issue of R is drawing line segments from Point 1 (file 1) to Point 2 (file 2); if there's no Point 2, then there can't be a line segment.

Possible solutions:

  1. Default to drawing dots at the appropriate signal intensities for each channel.
  2. Switch depiction to show Before and After on the same plot (Point/file 1 = Before, Point/File 2 = After).
  3. Something else?

Mike

mleipold commented 6 years ago

If I take the same file and put it through the MATLAB version, I do get a plot. See attached PNG 120117_beads_before_and_after

As far as I can tell, the special case of N=1 makes the x-axis become "Time" rather than "File name" (which is the default for N>1)

Mike

pfgherardini commented 6 years ago

I have added this in the latest release. Specifically now, for each sample, a plot of beads vs time is generated in the beads_vs_time subfolder (see documentation for more details)