A simple toolbox to illustrate how graph basis functions (GBFs) can be used for interpolation, classification and semi-supervised learning on graphs.
Version: 0.2 (15.01.2023)
Written by Wolfgang Erb
GBFlearn is a simple Matlab toolbox for interpolation, classification and semi-supervised learning with Graph Basis Functions.
Graph basis functions (GBFs) are graph analogs of the well-known radial basis functions or the spherical basis functions. Generalized shifts of positive definite GBFs generate kernels on graphs that can be used, as in traditional continuous settings, to approximate and interpolate graph signals, or as kernel machines for supervised and semi-supervised learning.
An introduction to GBFs explaining the relation to kernel methods on graphs is given in [1]. Applications of GBFs to machine learning on graphs can be found in [2]. A short tutorial and further information can be found at www.lissajous.it.
The package contains the following main parts
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The main Matlab folder contains example scripts and demos on how to use GBFs for the interpolation, regression and classification of graph signals.
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The subfolder ./core contains the core code of the package for the generation of the different graphs, the basis functions and the plots.
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The subfolder ./data contains several .mat files with the node information of the example graphs.
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The subfolder ./PUM contains the subroutines for the generation of partition of unities on graphs.
The example scripts can be divided into four categories:
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In the scripts of the form GBF_example_EFF_(graph).m the numerical methods for the efficient caluculation of the GBF kernels are tested.
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The files of the form GBF_example_ITP_(graph).m are used to demonstrate how GBFs can be used for the interpolation of graph signals and how GBFs compare to bandlimited interpolation.
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In the scripts of the form GBF_example_PUM_(graph).m it is illustrated how GBF kernel approximation can be combined with partition of unities in order to reduce the computational load by splitting the graph in smaller parts.
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In the scripts of the form GBF_example_SSL_(graph).m supervised and semi-supervised classification based on feature-augmented GBF kernels is tested on several data sets.
The main purpose of this code is to see how GBFs can be used for the interpolation of graph signals, or in supervised and semi-supervised classification on graphs. In the second release of this code, I added numerical routines that are able to generate the GBFs more efficiently so that it is possible to apply the toolbox also for larger graphs. Note however that I wrote the code mainly for didactical purposes and didn't optimize everything for speed. Therefore, some of the computations might still be quite slow if the code is not adjusted adeguately.
Anybody interested in optimizing or refining the actual code is warmly welcome to contribute. The same holds true if anybody is interested in adding new examples or analysis tools. Please contact me (www.lissajous.it) if you need further information.
If you are interested in a Python version of the code, you can find it at
https://github.com/GabrieleSantin/GraphBasisFunctions
This code was written by Wolfgang Erb at the Dipartimento di Matematica ''Tullio Levi-Civita'', University of Padova. The corresponding theory on GBFs related to the interpolation of graph signals and to kernel-based learning is given in
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[1] Erb, W.
Graph Signal Interpolation with Positive Definite Graph Basis Functions
arXiv:1912.02069 [eess.SP] (2019) -
[2] Erb, W.
Semi-Supervised Learning on Graphs with Feature-Augmented Graph Basis Functions
arXiv:2003.07646 [cs.LG] (2020)
Source for the Stanford bunny: Stanford University Computer Graphics Laboratory.
Source for the ionosphere data and the Wisconsin Breast Cancer data set: UCI machine learning repository
Copyright (C) 2020 Wolfgang Erb
GBFlearn is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
You should have received a copy of the GNU General Public License along with this program. If not, see http://www.gnu.org/licenses/.