Script for PTM Calculation

By David H. Nguyen, PhD (www.TSG-Lab.org)

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Beginning of ReadMe Info

Instructions

For a video tutorial explaining PGP and PTM, see: https://youtu.be/KbmhxKWt5Gg

1. The PTM coefficient (Pavlidis Template Matching) is just the Pearson Correlation.

However, the difference is that one of the profiles (one of the two columns in the data)

is a template pattern.

2. Data should be a .csv file.

3. Data should only be numbers.

4. Data should not have missing values.

5. Data should have two columns, each representing a profile that will be compared to the other profile.

The name of the first column MUST be “p1” and the name of the second one MUST be “p2”.

6. Change the name of file in Step 1a.

7. The result will be outputted as "The PTM Coefficient is N.NNN".

This script calculates the Pearson Correlation

Pearson Correlation Coefficient:

SUMMATION[ (Xi-Xm)*(Yi-Ym) ]

r = ---------------------------------

sqrt[(Xi-Xm)^2] * sqrt[(Yi-Ym)^2]

Xi = values of profile 1 from i to n

Xm = the mean of profile 1

Yi = values of profile 2 from i to n

Ym = the mean of profile 2

For a video tutorial of how to calculate Pearson's r, see:

"How To... Calculate Pearson's Correlation Coefficient (r) by Hand" by Eugene O'Loughlin

https://www.youtube.com/watch?v=2SCg8Kuh0tE

End of ReadMe Info

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