Homog. Poiss. with refr. Period: Bug fixed #283
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dizcza
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commit 08e23a8 Author: pbouss <[email protected]> Date: Fri Dec 20 15:20:01 2019 +0100 SPADE refactored if-else statements (NeuralEnsemble#285) Simplified code complexity by move if-else blocks here and there commit fce24ad Author: pbouss <[email protected]> Date: Tue Dec 17 12:23:00 2019 +0100 Bug fixed while dealing with the units of the refr. period (NeuralEnsemble#283) commit 8200eef Author: pbouss <[email protected]> Date: Fri Dec 13 16:11:22 2019 +0100 Feature/spade speed up (NeuralEnsemble#280) * Remove while loop, change mpi-use in pvalue spec * Use sparse representation of the BinnedSpikeTrain * refactored false discovery rate * reorganized errors for test_signature_significance * Implement filtering for pattern subsets when not performing pattern set reduction check for subset patterns trivially explained by longer patterns with the same n_occ due to the moving window * Adapt tests to new filtering proceidure * Always apply subset filtering commit 160e8e2 Author: Danylo Ulianych <[email protected]> Date: Wed Dec 11 15:44:04 2019 +0100 fixed bug in BinnedSpikeTrain.sparsity (NeuralEnsemble#281) commit 0d44cd7 Author: Danylo Ulianych <[email protected]> Date: Thu Dec 5 10:25:48 2019 +0100 unitary event decorate_deprecated_N refactoring (NeuralEnsemble#278) commit b116804 Author: Danylo Ulianych <[email protected]> Date: Mon Nov 25 12:31:36 2019 +0100 Fast covariance() and Pearson corrcoef() (NeuralEnsemble#274) clarified the difference in the implementation of CrossCorrHist.cross_corr_coef() and the reference book "Analysis of parallel spike trains", 2010 commit 59e6412 Author: pbouss <[email protected]> Date: Wed Nov 20 09:46:54 2019 +0100 Feature/spade duration (NeuralEnsemble#263) * Corrected error message * Doc. for Holm-Bonferroni * Changed calculation of duration for output of patterns * fixed calculation of duration for the signature * Pass spectrum to concepts_to_output function * Bug fixed in vairable assignment: concept commit de077d6 Author: Danylo Ulianych <[email protected]> Date: Tue Nov 19 16:17:52 2019 +0100 Use fftconvolve instead of np.correlate in cross_correlation_histogram (NeuralEnsemble#273) * cch np.correlate -> fftconvolve * moved internal functions in cross_correlation_histogram to a separate class * added BinnedSpikeTrain.get_num_of_spikes() function * added BinnedSpikeTrain.binarize() function commit 059ccf5 Author: pbouss <[email protected]> Date: Fri Nov 15 16:24:58 2019 +0100 Homogeneous Poisson Process with refr. period (NeuralEnsemble#261) commit f378f07 Author: Alexander van Meegen <[email protected]> Date: Tue Nov 12 10:23:29 2019 +0100 Feature timescale (NeuralEnsemble#271) * Implementation of timescale calculation * Use cross_corr_coef of CCH function * Check that tau_max is an integer multiple of binsize commit 82f307f Author: Danylo Ulianych <[email protected]> Date: Mon Nov 11 11:09:44 2019 +0100 fixed BinnedSpikeTrain.bin_edges property (NeuralEnsemble#257) * fixed BinnedSpikeTrain.bin_edges property * bin_edges: include t_stop if spiketrain duration is divisible by binsize * BinnedSpikeTrain: warn if binning discards the spikes in the last (excluded) bin * reuse is_binary func from utility.py commit bd684f5 Author: Danylo Ulianych <[email protected]> Date: Mon Nov 11 10:14:34 2019 +0100 Refactored unitary event (NeuralEnsemble#251) * completely removed misleading N arg - num. of neurons, which is always extracted from the data * fixed inverse_hash_from_pattern for long N > int64; added test_hash_inverse_longpattern * UE: deprecation warning commit 2967dac Author: Alexander van Meegen <[email protected]> Date: Fri Nov 8 16:38:27 2019 +0100 Calculate spike train auto-correlation time ('timescale') (NeuralEnsemble#266) * Implementation of timescale calculation commit 092d2fb Author: Michael Denker <[email protected]> Date: Fri Nov 8 12:33:32 2019 +0100 Added a simplified to correctly handle division with Compound Units (NeuralEnsemble#270) .magnitude -> .simplified.magnitude commit 5dfa042 Author: Danylo Ulianych <[email protected]> Date: Thu Oct 31 15:54:30 2019 +0100 elephant v0.6.4 [workshop] (NeuralEnsemble#268) commit 5b5a023 Author: Danylo Ulianych <[email protected]> Date: Tue Oct 22 16:10:16 2019 +0200 neo v0.8.0 compatible (NeuralEnsemble#256) * fixes for neo v0.8.0 * upd array_annotation comment * added todo for neo empty array_annotations commit eac914c Author: PaulinaDabrowska <[email protected]> Date: Tue Oct 22 16:09:41 2019 +0200 Improved doc string of covariance() and corrcoef() (NeuralEnsemble#260) * corrected explanation of the formula used in corrcoef and covariance (in the doc string) * pep8 commit 434cacd Author: Robin Gutzen <[email protected]> Date: Mon Oct 21 13:56:38 2019 +0200 keep array_annotations in the output of signal_processing functions (NeuralEnsemble#258) * pass array_annotations on to output of signal_processing functions * test keep array_annotations for zscore, butter, hilbert
dizcza
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Jan 10, 2020
commit 731bbe4 Author: pbouss <[email protected]> Date: Fri Jan 10 12:15:45 2020 +0100 Feature/joint isi dithering (NeuralEnsemble#275) commit 08e23a8 Author: pbouss <[email protected]> Date: Fri Dec 20 15:20:01 2019 +0100 SPADE refactored if-else statements (NeuralEnsemble#285) Simplified code complexity by move if-else blocks here and there commit fce24ad Author: pbouss <[email protected]> Date: Tue Dec 17 12:23:00 2019 +0100 Bug fixed while dealing with the units of the refr. period (NeuralEnsemble#283) commit 8200eef Author: pbouss <[email protected]> Date: Fri Dec 13 16:11:22 2019 +0100 Feature/spade speed up (NeuralEnsemble#280) * Remove while loop, change mpi-use in pvalue spec * Use sparse representation of the BinnedSpikeTrain * refactored false discovery rate * reorganized errors for test_signature_significance * Implement filtering for pattern subsets when not performing pattern set reduction check for subset patterns trivially explained by longer patterns with the same n_occ due to the moving window * Adapt tests to new filtering proceidure * Always apply subset filtering commit 160e8e2 Author: Danylo Ulianych <[email protected]> Date: Wed Dec 11 15:44:04 2019 +0100 fixed bug in BinnedSpikeTrain.sparsity (NeuralEnsemble#281) commit 0d44cd7 Author: Danylo Ulianych <[email protected]> Date: Thu Dec 5 10:25:48 2019 +0100 unitary event decorate_deprecated_N refactoring (NeuralEnsemble#278) commit b116804 Author: Danylo Ulianych <[email protected]> Date: Mon Nov 25 12:31:36 2019 +0100 Fast covariance() and Pearson corrcoef() (NeuralEnsemble#274) clarified the difference in the implementation of CrossCorrHist.cross_corr_coef() and the reference book "Analysis of parallel spike trains", 2010 commit 59e6412 Author: pbouss <[email protected]> Date: Wed Nov 20 09:46:54 2019 +0100 Feature/spade duration (NeuralEnsemble#263) * Corrected error message * Doc. for Holm-Bonferroni * Changed calculation of duration for output of patterns * fixed calculation of duration for the signature * Pass spectrum to concepts_to_output function * Bug fixed in vairable assignment: concept commit de077d6 Author: Danylo Ulianych <[email protected]> Date: Tue Nov 19 16:17:52 2019 +0100 Use fftconvolve instead of np.correlate in cross_correlation_histogram (NeuralEnsemble#273) * cch np.correlate -> fftconvolve * moved internal functions in cross_correlation_histogram to a separate class * added BinnedSpikeTrain.get_num_of_spikes() function * added BinnedSpikeTrain.binarize() function commit 059ccf5 Author: pbouss <[email protected]> Date: Fri Nov 15 16:24:58 2019 +0100 Homogeneous Poisson Process with refr. period (NeuralEnsemble#261) commit f378f07 Author: Alexander van Meegen <[email protected]> Date: Tue Nov 12 10:23:29 2019 +0100 Feature timescale (NeuralEnsemble#271) * Implementation of timescale calculation * Use cross_corr_coef of CCH function * Check that tau_max is an integer multiple of binsize commit 82f307f Author: Danylo Ulianych <[email protected]> Date: Mon Nov 11 11:09:44 2019 +0100 fixed BinnedSpikeTrain.bin_edges property (NeuralEnsemble#257) * fixed BinnedSpikeTrain.bin_edges property * bin_edges: include t_stop if spiketrain duration is divisible by binsize * BinnedSpikeTrain: warn if binning discards the spikes in the last (excluded) bin * reuse is_binary func from utility.py commit bd684f5 Author: Danylo Ulianych <[email protected]> Date: Mon Nov 11 10:14:34 2019 +0100 Refactored unitary event (NeuralEnsemble#251) * completely removed misleading N arg - num. of neurons, which is always extracted from the data * fixed inverse_hash_from_pattern for long N > int64; added test_hash_inverse_longpattern * UE: deprecation warning commit 2967dac Author: Alexander van Meegen <[email protected]> Date: Fri Nov 8 16:38:27 2019 +0100 Calculate spike train auto-correlation time ('timescale') (NeuralEnsemble#266) * Implementation of timescale calculation commit 092d2fb Author: Michael Denker <[email protected]> Date: Fri Nov 8 12:33:32 2019 +0100 Added a simplified to correctly handle division with Compound Units (NeuralEnsemble#270) .magnitude -> .simplified.magnitude commit 5dfa042 Author: Danylo Ulianych <[email protected]> Date: Thu Oct 31 15:54:30 2019 +0100 elephant v0.6.4 [workshop] (NeuralEnsemble#268) commit 5b5a023 Author: Danylo Ulianych <[email protected]> Date: Tue Oct 22 16:10:16 2019 +0200 neo v0.8.0 compatible (NeuralEnsemble#256) * fixes for neo v0.8.0 * upd array_annotation comment * added todo for neo empty array_annotations commit eac914c Author: PaulinaDabrowska <[email protected]> Date: Tue Oct 22 16:09:41 2019 +0200 Improved doc string of covariance() and corrcoef() (NeuralEnsemble#260) * corrected explanation of the formula used in corrcoef and covariance (in the doc string) * pep8 commit 434cacd Author: Robin Gutzen <[email protected]> Date: Mon Oct 21 13:56:38 2019 +0200 keep array_annotations in the output of signal_processing functions (NeuralEnsemble#258) * pass array_annotations on to output of signal_processing functions * test keep array_annotations for zscore, butter, hilbert
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Bug fixed while dealing with the units of the refr. period