Feature/inhomogeneous gamma #339
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dizcza
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Aug 5, 2020
dizcza
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Sep 1, 2020
BranchBroxy
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Sep 15, 2020
* faster mean_firing_rate for a typical use case (NeuralEnsemble#331) * explicit doc of how the firing rate is computed * Timescale function option to return nan if there are few spikes (<=2) (NeuralEnsemble#328) * include option to return np.nan if spiketrains are too short and change raised error to more meaningful ones * Build documentation in Travis (NeuralEnsemble#335) * fixed _check_consistency in BinnedSpikeTrain and parallel.ipynb notebook * added docs build in travis; fixed plt.eventplot(spiketrains) * don't use conda-forge channel for python 2.7 * install extra requirements in docs build * conda install pandoc * travis hangs * travis doc mpi error * travis check if error is occurred * Revert "travis check if error is occurred" This reverts commit 3e59894. * reverted travis * Removed deprecation warnings from 0.7.0 (NeuralEnsemble#306) * removed deprecation warning from unitary event analysis * removed homogeneous_poisson_process_with_refr_period * don't import pandas_bridge * don't use nan * don't pad with zeros * bin_shrink_factor parameter * precompute edges for _binning_half_overlap * deal with spiketrains of length 1 * return trace optionally * ASSET optimized probability_matrix_analytical and looping in _jsf_uniform_orderstat_3d (NeuralEnsemble#333) * removed annoying short-lasting tranges * vectorized probability_matrix_analytical * ASSET iterate indices optimized * replaced np.diff(prepend, append) by manually prepending and appending Co-authored-by: Cristiano Köhler <c.koehler@fz-juelich.de> * Naming convention (binsize -> bin_size, etc.) (NeuralEnsemble#316) * Release v0.8.0 (NeuralEnsemble#340) * all quantities * python2 issues * python2 issues again * Update acknowledgments.rst Added funding acknowledgements from HBP SGA3. * added __all__ in elephant modules (NeuralEnsemble#342) * Added a warning in fanofactor function when the input spiketrains vary in their durations (NeuralEnsemble#341) * fixed wrong default min_bin units * naming * download & unzip API * Feature/inhomogeneous gamma (NeuralEnsemble#339) * Added information on citing Elephant to documentation, fixed bib entries (NeuralEnsemble#345) * Added CITATION.txt file to manifest, so it's included in packages. * Fixed doi entry to not include the doi resolver. * Three surrogate methods: Trial-shifting, Bin Shuffling, ISI dithering (NeuralEnsemble#343) Co-authored-by: stellalessandra <a.stella@fz-juelich.de> Co-authored-by: p-bouss <peter.bouss@googlemail.com> Co-authored-by: Cristiano Köhler <42555442+kohlerca@users.noreply.github.com> * SPADE: New way to count patterns for multiple testing (NeuralEnsemble#347) Co-authored-by: stellalessandra <a.stella@fz-juelich.de> Co-authored-by: p-bouss <peter.bouss@googlemail.com> * spike synchrony doc; take the first 5 networks to run the test * renamed test module * group spike train correlation, dissimilarity, and synchrony * tutorials: changed wget to curl for platform compatibility (NeuralEnsemble#350) * Time-domain pairwise Granger causality (NeuralEnsemble#332) Co-authored-by: ackurth <a.kurth@fz-juelich.de> Co-authored-by: ackurth <44397333+ackurth@users.noreply.github.com> Co-authored-by: dizcza <dizcza@gmail.com> Co-authored-by: Michael Denker <m.denker@fz-juelich.de> Co-authored-by: Aitor MG <43403140+morales-gregorio@users.noreply.github.com> Co-authored-by: Cristiano Köhler <c.koehler@fz-juelich.de> Co-authored-by: Michael Denker <m.denker@fz-juelich.de> Co-authored-by: pbouss <34713558+pbouss@users.noreply.github.com> Co-authored-by: stellalessandra <a.stella@fz-juelich.de> Co-authored-by: p-bouss <peter.bouss@googlemail.com> Co-authored-by: Cristiano Köhler <42555442+kohlerca@users.noreply.github.com> Co-authored-by: Regimantas Jurkus <regimantas.jurkus@gmail.com> Co-authored-by: ackurth <a.kurth@fz-juelich.de> Co-authored-by: ackurth <44397333+ackurth@users.noreply.github.com>
This was referenced Nov 4, 2022
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Added a function to generate an inhomogeneous Gamma process