real-world illustration about tdastats HOT 10 CLOSED

Yes, this is a great suggestion. Unfortunately, this package was created to cement the methodology of future research, rather than to solve a problem noticed in a prior project. As such, we do not yet have real-world data to which we have applied the functions in this package. I will leave the issue open, and when we do apply this method to real-world data with successful results, I will add the dataset and corresponding vignette/case study to the package.

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Hi -- I'm working on using this with real data and could contribute an illustration if I knew how to input a distance matrix to the TDAstats calculate_homology command. I know that Ripser is happy to work with distance matrices, but I don't see how to use a distance matrix with TDAstats, and so much real-world data requires a distance matrix (financial data, health data, etc.).

Let me know how to input a distance matrix and I'll give you a nice real-world application!

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Does the following code work?

calculate_homology(mat, format = "distmat")

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Thanks for the reply.

calculate_homology(mat, format = "distmat")
does work as long as mat is

• a symmetric (distance) matrix, or
• a lower-triangular matrix with zeros elsewhere.

It does not work if mat is upper-triangular or the output of R's dist function, for what it's worth -- but dist does have a funky output format.

I'll try to submit a real-world example by next Tuesday.

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Great, looking forward to seeing the real-world example @kaitai. Happy that TDAstats was helpful. And thank you, @ShotaOchi, appreciate the helpful answer.

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I should have been wiser than to promise anything during the first week of the semester. I put an Rmd file on my github page and am happy to contribute it.
https://github.com/kaitai/Example-with-TDAstats

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No worries, all contributions are appreciated. The link you included does not seem to be working for me; does it point to a private repo?

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No, just a typo :) Try now!

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Looks wonderful, thank you! I will link it to the TDAstats main page soon.

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The link has been added to the Applications section of the README. Thank you, @kaitai!

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