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I am working with hyperspectral image data in R, so I have subset an image to a region of 5000 pixels, each containing a vector 254 bands in length.

I would like to cluster this data in order to try and map regions with similar surface composition.

Due to differences in surface reflectance, if I plot two pixels, where for example: x=1:254, y=0:1 (reflectance)

They may have very similar shape (values across all bands) but be vertically offset from one another due to the overall reflectance of the surface.

For my region I have a mean spectrum, and each pixel contains a vector of 254 residual values. I can't use Euclidean distance to compare vectors, because it will change depending on the overall reflectance, so I'm not sure if there's a more appropriate measure to use that will give me a better comparison.

Apologies for my novice question.

*Edit: This question is also posted at: https://stats.stackexchange.com/questions/67781/appropriate-distance-measures

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    $\begingroup$ I think your question might get a helpful answer sooner on stats.stackexchange.com although I am not sure. (If you do post there, then please leave a link here to the new question.) $\endgroup$
    – Yemon Choi
    Aug 16, 2013 at 16:51
  • $\begingroup$ Dear @EJA: I added some tags which I hope are relevant to the question. $\endgroup$
    – Ricardo Andrade
    Aug 17, 2013 at 3:25
  • $\begingroup$ Thank you both very much, for the suggestions and edits. $\endgroup$
    – EJA
    Aug 19, 2013 at 14:48

2 Answers 2

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A good place to start would be the Wasserstein metric.

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if the vertical offset is approximately the same within a vector, then it would be a simple strategy to subtract the mean value in order to 'normalize' the vectors before calculating Euclidean distances.

Yet another approach could be to work with the vectors of differences of 'adjacent' coordinate values, which reduces the dimension of vectors by 1.

These methods are low hanging fruits; maybe they already suffice to solve your problem.

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