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## Aim
Write a tutorial (with pictures) that explains how nucleotide distance matrices are generated
## Background
Since it is best to start simple and get more complex, we are starting by…
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## Feature request
I'm interested in applying `@cuda.jit` decorators to calculate pairwise distance matrices. The [Wasserstein or earth mover's distance](https://en.wikipedia.org/wiki/Wasserstein_m…
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Hello, James.
First of all, thank you very much for your awesome implementation - it is the only one to date (in R, at least) that could handle sparse matrices as an input. So I have this pre-calcul…
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(a bit more open ended than the standard format)
Both our `Client` and `Depot` classes have $(x, y)$ coordinate data in them, and their indices are used to index the distance and duration matrices.…
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First, i want to congratulate you on PaCMAP. I have been using it for some weeks now and it has been working really nicely with my data.
I wanted to ask: is there a way to use PaCMAP with user-inp…
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When using cityblock, we won't have to do what's happening here:
https://github.com/jsevo/taxumap/blob/61165d1f879fee4bab359597bcd63f494dd7b6ce/taxumap/tools.py#L20
The distances can be calculat…
jsevo updated
2 years ago
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## 🚀 Feature
I was wondering if it would be possible to do the OT matrix computation (ot.emd) using sparse matrices,
(eg: https://docs.scipy.org/doc/scipy/reference/generated/scipy.sparse.coo_array…
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## What?
The Riemannian geodesic distance of the Bures Wasserstein metric on the manifold of symmetric positive definite (SPD) matrices has a bug: computing the distance from the SPD matrix `mat_a`…
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Hi
I am trying to run the file by "python train.py --data_path data/freesolv.csv --dataset_type regression --save_dir data_test/freesolv --bond_fast_attention --atom_attention --adjacency --adjacenc…
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Distance matrices and json files are there for specific use cases, we should avoid forcing users to download them unless they request them.