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annotate doc/v2_planning/existing_python_ml_libraries.txt @ 1390:746ebceeb46f

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added comments to hmc code (old outstanding changes)
author gdesjardins
date Mon, 20 Dec 2010 18:08:04 -0500
parents f5e9c00a67d7
children
rev   line source
1008
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Dumitru Erhan <dumitru.erhan@gmail.com>
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1 Committee members: GD, DWF, IG, DE
a5886b394bda Updating with talking points from Sept. 2 discussion
Dumitru Erhan <dumitru.erhan@gmail.com>
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2
a5886b394bda Updating with talking points from Sept. 2 discussion
Dumitru Erhan <dumitru.erhan@gmail.com>
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3 This committee will investigate the possibility of interfacing and/or
a5886b394bda Updating with talking points from Sept. 2 discussion
Dumitru Erhan <dumitru.erhan@gmail.com>
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4 borrowing from other Python machine learning libraries that exist out there.
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Dumitru Erhan <dumitru.erhan@gmail.com>
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5 Some questions that we need to answer:
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Dumitru Erhan <dumitru.erhan@gmail.com>
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6
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Dumitru Erhan <dumitru.erhan@gmail.com>
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7 * How much should we try to interface with other libraries?
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Dumitru Erhan <dumitru.erhan@gmail.com>
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8 * What parts can we and should we implement ourselves and what should we leave
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9 to the other libraries?
1008
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Dumitru Erhan <dumitru.erhan@gmail.com>
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10
a5886b394bda Updating with talking points from Sept. 2 discussion
Dumitru Erhan <dumitru.erhan@gmail.com>
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11 Preliminary list of libraries to look at:
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Dumitru Erhan <dumitru.erhan@gmail.com>
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12
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Ian Goodfellow
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13 * Pybrain Razvan
730c00950957 signed myself, Razvan, and Guillaume up for some existing libraries to review
Ian Goodfellow
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14 * MDP Ian
730c00950957 signed myself, Razvan, and Guillaume up for some existing libraries to review
Ian Goodfellow
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15 * Orange (http://www.ailab.si/orange/) Ian (but could trade)
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16 * PyML (http://pyml.sourceforge.net/)
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17 * mlpy (https://mlpy.fbk.eu/) Dumitru
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18 * APGL (http://packages.python.org/apgl/) Dumitru
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gdesjardins
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19 * MontePython (http://montepython.sourceforge.net/) Guillaume (but could trade)
1008
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20 * Shogun python bindings
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Ian Goodfellow
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21 * libsvm python bindings Ian (but could trade)
730c00950957 signed myself, Razvan, and Guillaume up for some existing libraries to review
Ian Goodfellow
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22 * scikits.learn Guillaume (but could trade)
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23
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24 Also check out http://scipy.org/Topical_Software#head-fc5493250d285f5c634e51be7ba0f80d5f4d6443
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25 - scipy.org's ``topical software'' section on Artificial Intelligence and Machine Learning
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26
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27
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28 Email sent by IG to lisa_labo
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29 -----------------------------
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30
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31 The Existing Libraries committee has finished meeting. We have three
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32 sets of recommendations:
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33 1. Recommendations for designing pylearn based on features we like
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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34 from other libraries
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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35 2. Recommendations for distributing pylearn with other libraries
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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36 3. Recommendations for implementations to wrap
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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37
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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38 1. Features we liked from other libraries include:
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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39 -Most major libraries such as MDP, PyML, scikit.learn, and pybrain
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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40 offer some way of making a DAG that specifies a feedforward
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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41 architecture (Monte Python does this and allows backprop as well). We
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
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parents: 1189
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42 will probably have a similar structure but with more features on top
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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43 of it, such as joint training. One nice feature of MDP is the ability
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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44 to visualize this structure in an HTML document.
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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45 -Dataset abstractions handled by transformer nodes: Rather than
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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46 defining several "views" or "casts" of datasets, most of these
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Olivier Delalleau <delallea@iro>
parents: 1189
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47 libraries (particularly mdp and scikit.learn) allow you to put in
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Olivier Delalleau <delallea@iro>
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48 whatever kind of data you want, and then have your processing nodes in
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Olivier Delalleau <delallea@iro>
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49 your DAG format the data correctly for the later parts of the DAG.
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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50 This makes it easy to use several transformed versions of the dataset
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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51 (like chopping images up into small patches) without pylearn having to
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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52 include functionality for all of these possible transformations.
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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53 -mdp and scikit.learn both have a clearly defined inheritance
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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54 structure, with a small number of root-level superclasses exposing
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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55 most of the functionality of the library through their method
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Olivier Delalleau <delallea@iro>
parents: 1189
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56 signatures.
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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57 -checkpoints: mdp allows the user to specify arbitrary callbacks to
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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58 run at various points during training or processing. This is mainly
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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59 designed for the user to be able to save state for crash recovery
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Olivier Delalleau <delallea@iro>
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60 purposes, but could have other uses like visualizing the evolution of
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61 the weights over time.
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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62 -mdp includes an interface for learners to declare that they can learn
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63 in parallel, ie the same object can look at different data on
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64 different cpu cores. This is not useful for sgd-based models but could
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Olivier Delalleau <delallea@iro>
parents: 1189
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65 be nice for pca/sfa type models (which is most of what mdp
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66 implements).
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
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parents: 1189
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67 -Monte Python has humorously named classes, such as the 'gym', which
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
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parents: 1189
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68 is the package that contains all of the 'trainers'
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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69 -pyml has support for sparse datasets
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
parents: 1189
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70 -pyml has an 'aggregate dataset' that can combine other datasets
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
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71
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
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72
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
Olivier Delalleau <delallea@iro>
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73 2. Recommendations for distributing pylearn
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Olivier Delalleau <delallea@iro>
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74
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
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75 pylearn appears to be the most ambitious of all existing python
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76 machine learning projects. There is no established machine learning
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77 library whose scope is broad enough for us to contribute to that
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Olivier Delalleau <delallea@iro>
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78 library rather than developing our own.
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79
53937045f6c7 Pasted content of email sent by Ian about existing python ML libraries
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80 Some libraries are frequently cited in the literature and
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81 well-respected. One example is libsvm. We should wrap these libraries
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82 so that pylearn users can run experiments with the most
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83 well-established and credible implementations possible.
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84
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85 Wrapping 3rd party libraries may present some issues with licensing.
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86 We expect to release pylearn under the BSD license (so that business
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87 partners such as Ubisoft can use it in shipped products), but much of
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88 the code we want to wrap may be released under the GPL or some other
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89 license that prevents inclusion in a BSD project. We therefore propose
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90 to keep only core functionality in pylearn itself, and put most
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91 implementation of actual algorithms into separate packages. One
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92 package could provide a set of BSD licensed plugins developed by us or
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93 based on wrapping BSD licensed 3rd party libraries, and another
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94 package could provide a set of GPL licensed plugins developed by
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95 wrapping GPL'ed code.
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96
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97 3. Recommendations for implementations to wrap
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98
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99 * shogun:
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100 * large scale kernel learning (mostly svms). this wraps other
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101 libraries we should definitely be interested in, such as libsvm
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102 (because it is well-established) and others that get state of the art
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103 performance or are good for extremely large datasets, etc.
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104 * milk:
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105 * k-means
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106 * svm's with arbitrary python types for kernel arguments
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107 * pybrain:
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Frederic Bastien <nouiz@nouiz.org>
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108 * lstm
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109 * mlpy:
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110 * feature selection
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111 * mdp:
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Frederic Bastien <nouiz@nouiz.org>
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112 * ica
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113 * LLE
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114 * scikit.learn:
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115 * lasso
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116 * nearest neighbor
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117 * isomap
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118 * various metrics
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119 * mean shift
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120 * cross validation
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121 * LDA
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122 * HMMs
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123 * Yet Another Python Graph Library:
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124 * graph similarity functions that could be useful if we want to
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125 learn with graphs as data
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126