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>

.gitignore

@@ -48,6 +48,7 @@ doc/reference/toctree/asset/elephant.asset.synchronous*
 doc/reference/toctree/parallel
 doc/reference/toctree/statistics
 doc/reference/toctree/unitary_event_analysis
+doc/reference/toctree/causality
 *.h5
 # setup.py dist directory
 dist

doc/authors.rst

@@ -47,6 +47,8 @@ Do you want to contribute to Elephant? Please refer to the
 * Jan Lewen [1]
 * Alexander Kleinjohann [1]
 * Danylo Ulianych [1]
+* Anno Kurth [1]
+* Regimantas Jurkus [1]
 
 1. Institute of Neuroscience and Medicine (INM-6), Computational and Systems Neuroscience & Institute for Advanced Simulation (IAS-6), Theoretical Neuroscience, Jülich Research Centre and JARA, Jülich, Germany
 2. Unité de Neurosciences, Information et Complexité, CNRS UPR 3293, Gif-sur-Yvette, France

doc/bib/elephant.bib

@@ -1,4 +1,23 @@
-@article{Gruen02_43, 
+@misc{Ding06_0608035,
+  title={Granger Causality: Basic Theory and Application to Neuroscience},
+  author={Mingzhou Ding and Yonghong Chen and Steven L. Bressler},
+  year={2006},
+  eprint={q-bio/0608035},
+  archivePrefix={arXiv},
+  primaryClass={q-bio.QM}
+}
+
+@article{Granger69_424,
+  title={Investigating causal relations by econometric models and cross-spectral methods},
+  author={Granger, Clive WJ},
+  journal={Econometrica: journal of the Econometric Society},
+  volume={37},
+  pages={424--438},
+  year={1969},
+  doi={10.2307/1912791}
+}
+
+@article{Gruen02_43,
   title = {Unitary events in multiple single-neuron spiking activity: I. Detection and significance},
   author = {Gr{\"u}n, S. and Diesmann, M. and Aertsen, A.},
   year = {2002},
@@ -63,6 +82,18 @@ @article{Riehle97_1950
   doi = {10.1126/science.278.5345.1950}
 }
 
+@article{Seth07_1667,
+  author = {Seth, A. },
+  title   = {Granger causality},
+  year    = {2007},
+  journal = {Scholarpedia},
+  volume  = {2},
+  number  = {7},
+  pages   = {1667},
+  doi     = {10.4249/scholarpedia.1667},
+  note    = {revision \#127333}
+}
+
 @article{Stella19_104022,
   title = {3d-{SPADE}: {S}ignificance evaluation of spatio-temporal patterns of various temporal extents},
   author = {Stella, A. and Quaglio, P. and Torre, E. and Gr{\"u}n, S.},

doc/modules.rst

@@ -6,6 +6,7 @@ Function Reference by Module
    :maxdepth: 1
 
    reference/asset
+   reference/causality
    reference/cell_assembly_detection
    reference/change_point_detection
    reference/conversion

doc/reference/causality.rst

@@ -0,0 +1,5 @@
+==================
+Causality measures
+==================
+
+.. automodule:: elephant.causality.granger