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AFM-SPM / TopoStats

An AFM image analysis program to batch process data and obtain statistics from images
https://afm-spm.github.io/TopoStats/
GNU Lesser General Public License v3.0
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Adai - Matching Trace Images #312

Open MaxGamill-Sheffield opened 1 year ago

MaxGamill-Sheffield commented 1 year ago

Is your feature request related to a problem? Please describe. AFM's produce 2 "images" for each channel, one is from a forward trace and the other the backward trace as the AFM tip raster scans across the image.

Due to a number of reasons, these traces may not perfectly align, and thus the images can look "out of sync".

Describe the solution you'd like A feature which can align the two images produced.

Additional context My research (Max):

This issue is a complex one but usually goes under the name of image alignment/registration. The most applicable and I think easiest to implement is via Homography for which there is an openCV module for. This method works to not only account for offsets but also adjusts warped images and has a number of steps:

  1. Identify features in both images
  2. Convert features to points
  3. Identify very similar points in both images via correlation and discard the rest (must have > 3 points)
  4. Use the points to calculate the Homography matrix (https://en.wikipedia.org/wiki/Homography)
  5. Apply the matrix to the image
ns-rse commented 8 months ago

Is this still an issue @MaxGamill-Sheffield ?

Is aligning the pictures required and if so how does it fit into the workflow?

MaxGamill-Sheffield commented 8 months ago

I guess maybe more of a feature request for the future but aligning both images could possibly help improve resolution