Joseph Lizier
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ccbccc6302
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Merge branch 'master' of github.com:jlizier/JIDT
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2020-05-15 17:37:32 +10:00 |
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Joseph Lizier
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cbcca8d0ff
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fixing addedMoreThanOneObservationSet for the MultiInfoCalculator
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2020-05-15 17:35:54 +10:00 |
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Joseph Lizier
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510f999d2e
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Adds addObservations calls with validity arrays for conditional transfer entropy
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2020-05-15 17:34:00 +10:00 |
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Pedro Mediano
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64a7a80e30
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Changed name of LDFLAGS to avoid potential conflicts
Closes #80 .
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2020-05-02 14:37:27 +01:00 |
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Joseph Lizier
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1c2ccda1eb
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Updated contributors list
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2020-01-24 11:42:56 +11:00 |
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Joseph Lizier
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edb8f997cb
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Added new loader file for 2D xls format to flocking analysis demo
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2019-12-17 17:08:27 +11:00 |
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Joseph Lizier
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502f7ac22c
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Merge branch 'master' of github.com:jlizier/JIDT
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2019-12-13 11:44:03 +11:00 |
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Joseph Lizier
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2c2d012e20
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Sooraj Sekhar's addition to flocking analysis of allowing speed to be included in the information-theoretic calculations. Includes updated NetLogo demo where speed coherence is also added
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2019-12-13 11:40:58 +11:00 |
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Joseph Lizier
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f53ecba635
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Added Emanuele Crosato to author's list for the flocking demo code
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2019-09-01 22:06:27 +10:00 |
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Joseph Lizier
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4966fdabc2
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Adding a code suite to run active information storage and transfer entropy analysis of positional / heading data from swarms/flocks/schools, including a demonstration of how to use the suite with a NetLogo example. Documentation on a wiki page to follow later ...
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2019-08-29 23:08:16 +10:00 |
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Joseph Lizier
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c22e37d1ab
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Adding new lecture slides for Module 0 Introduction to course
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2019-08-09 17:20:12 +10:00 |
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Joseph Lizier
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61ae6fb40b
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Minor updates to AutoAnalyser to put fixtures in place for array conversion to Python with eventual handling of 2D arrays (code isn't really changed at the moment, but has methods to make this easy later)
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2019-07-25 23:56:56 +10:00 |
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Joseph Lizier
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2ab3ac01bb
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Adding non-overloaded method signatures for adding 1D vs 2D observations for common class for continuous MI and CMI estimators, since JPype 0.7 does not seem able to resolve overloaded 1D vs 2D arrays any longer
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2019-07-25 23:11:44 +10:00 |
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Joseph Lizier
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1667b9fe7a
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Added utility for subsampling rows from 2D matrix
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2019-07-25 14:36:54 +10:00 |
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Joseph Lizier
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1dc2dc8b86
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Updating all discrete calculators (except SeparableInfo, since it's outmoded) to have a default empty constructor, with an overloaded initialise method added that provides all relevant properties. Fixes #77, and provides a first step for #66. Also aligned PredictiveInfo and ConditionalTE calculators to use the appropriate super classes.
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2019-07-25 14:29:51 +10:00 |
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Joseph Lizier
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d545793bc5
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Patching unit test on KSG MI with discrete which tested that result changed from K=2 to 4, but the threshold for change was too large.
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2019-07-25 10:14:57 +10:00 |
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Joseph Lizier
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0dae162d82
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Added new unit tests for TE with k=0 for Gaussian and KSG estimators
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2019-07-23 11:43:55 +10:00 |
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Joseph Lizier
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17bf0e0be7
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Updating octave-java interface to use non-overloaded method signatures for int and boolean arrays (this seemed to have caused an issue on some versions with ints being converted to boolean first, thus losing all values except 0-1)
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2019-07-23 11:33:04 +10:00 |
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Joseph Lizier
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fba941362d
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Adding further unit tests for Conditional TE (continuous-valued) to check different delays on conditional variables, and patching test of validity of calling univariate versus multivariate method signatures.
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2019-07-12 14:45:23 +10:00 |
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Joseph Lizier
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1db8a2ac63
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Making local computation for CMI Gaussian calculator store the lastAverage if it was called with the previous observations
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2019-05-17 22:47:16 +10:00 |
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Joseph Lizier
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681c9196ee
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Added methods to MatrixUtils (plus unit tests) for adding/removing/swapping sample points into existing means and covariances
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2019-05-17 22:27:30 +10:00 |
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Joseph Lizier
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9f9c79bc95
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Handling infinites in Chi square CDF function properly
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2019-05-17 22:24:54 +10:00 |
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Joseph Lizier
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8542d217ea
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Added support for Chi^2 analytic distribution to support degrees of freedom 0 (this will handle e.g. where a source had no independent dimensions)
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2019-05-17 22:20:54 +10:00 |
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Joseph Lizier
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fce1b34a5c
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Adding NORMALISE and NOISE_LEVEL_TO_ADD properties to all conditional mutual information calculators for continuous-valued data (extends this capability from only KSG to Gaussian as well)
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2019-04-03 00:12:00 +11:00 |
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Joseph Lizier
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d9db7a15ab
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Further clarifications for including NORMALISE and NOISE_LEVEL_TO_ADD properties to all mutual information calculators, and handling linear redundancy sub-cases
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2019-04-03 00:07:05 +11:00 |
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Joseph Lizier
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b1437452e4
|
Adding NORMALISE and NOISE_LEVEL_TO_ADD properties to all mutual information calculators for continuous-valued data (extends this capability from only KSG to Gaussian and kernel as well, the latter already had NORMALISE)
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2019-04-02 12:38:17 +11:00 |
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Joseph Lizier
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ecec4d20e3
|
Added unit tests for linear dependency possibilities for issue #16
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2019-03-31 23:22:55 +11:00 |
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Joseph Lizier
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988d32de70
|
Added bug fix within recent changes to MatrixUtils Cholesky decomposition calculation, along with unit testing of the linear dependency combinations for issue #17
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2019-03-31 23:21:39 +11:00 |
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Joseph Lizier
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2a0024ad83
|
Fixes issue #17: Handling sub-cases for linear redundancy within and across variables in the linear-Gaussian mutual information estimator. This is done by detecting such redundancies and either returning 0 or infinity as the requisite result. Mirrors how this is done for conditional MI.
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2019-03-29 00:01:36 +11:00 |
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Joseph Lizier
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66676a2692
|
A rewrite of parts of the linear Gaussian conditional MI estimator, in order to more deftly handle linear dependencies within variables 1 and 2, and between each of them and the conditional. Previously we removed sub-variables of those arbitrarily, now the removal is targetted to those sub-variables that are problematic. Also required some variable name changes to reflect different ordering of how variables and the conditionals are concatenated in arrays.
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2019-03-28 23:58:53 +11:00 |
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Joseph Lizier
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d58c393c53
|
Added methods to MatrixUtils to make a Cholesky decomposition of independent components only (useful for MI and conditional MI calculations), with a required update to the NonPositiveDefiniteMatrixException to include a field defining which row in the matrix was a problem. Also includes code to convert between native int[] arrays and ArrayList<Integers>, and new method signatures for column selection from matricies.
Also added new unit tests for the Cholesky decomposition.
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2019-03-28 23:52:47 +11:00 |
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Joseph Lizier
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1d2c7c42b9
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Updating javaMatrixToOctave to handle new conversion routine in octave (and be backwards compatible to old)
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2019-03-21 09:35:41 +11:00 |
|
Joseph Lizier
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9aed0d4590
|
Merge remote branch 'origin/master'
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2019-03-11 12:04:18 +11:00 |
|
Joseph Lizier
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c4349140f1
|
Updating ant javadoc target to use packageset instead of fileset (for JDK >= 8 it seems that fileset is not properly handling the java source code I want the javadocs to ignore; packageset is doing this ok). Fixes Issue #75 (the javadocs part)
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2019-03-11 11:58:17 +11:00 |
|
David Shorten
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4985def021
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fixed weirdness
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2019-02-01 15:35:26 +11:00 |
|
Joseph Lizier
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c693b5d57e
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Edited funding acknowledgements on README.md
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2019-02-01 13:38:35 +11:00 |
|
David Shorten
|
ea8a322b61
|
end Tues
|
2019-01-29 19:51:21 +11:00 |
|
David Shorten
|
fcbf5e7dac
|
end Thurs
|
2019-01-22 19:17:36 +11:00 |
|
David Shorten
|
8bcf41e572
|
end Wed
|
2018-12-19 17:15:47 +11:00 |
|
David Shorten
|
504c6262f0
|
end Tues
|
2018-12-18 20:32:37 +11:00 |
|
David Shorten
|
23abc021ac
|
modification to calculation for point inclusion
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2018-12-11 16:15:03 +11:00 |
|
David Shorten
|
064953c584
|
bit of cleaning up
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2018-12-11 15:18:51 +11:00 |
|
David Shorten
|
b467ea22a1
|
option of using same K for dest history
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2018-12-11 15:15:26 +11:00 |
|
David Shorten
|
9f51dc284c
|
option of not doing radius trimming
|
2018-12-11 12:21:27 +11:00 |
|
David Shorten
|
6f8ae62fee
|
option of excluding the point itself
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2018-12-11 12:03:44 +11:00 |
|
David Shorten
|
267796dc83
|
forced inclusion of TransferEntropyCalculatorSpikingIntegration.java
|
2018-12-10 20:29:54 +11:00 |
|
David Shorten
|
ec01683592
|
Incorporated JL code from 21/11/2018
|
2018-12-10 20:22:15 +11:00 |
|
David Shorten
|
fa9a45a9cf
|
added in the original spiking estimator code
|
2018-12-10 17:12:15 +11:00 |
|
Joseph Lizier
|
2ba27f30ac
|
Merge pull request #73 from pmediano/master
Minor updates to GPU tests and examples following v1.5 release.
|
2018-11-26 10:28:15 +11:00 |
|
Pedro Martinez Mediano
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4908276333
|
GPU tests and example now compute multiple surrogates.
|
2018-11-25 19:45:48 +02:00 |