spectral_connectivity

spectral_connectivity copied to clipboard

Functional connectivity methods are asymmetric

2

Hi all, When using [this dataset](https://github.com/Eden-Kramer-Lab/spectral_connectivity/files/8843792/example_dataset.zip), we found that the following methods (that are named as functional on the main page) yield directed values: `coherence_phase` `phase_locking_value` `phase_lag_index` `weighted_phase_lag_index` The dataset...

olivercliff

Paper for JOSS

1

+ paper.md and paper.bib have been added

MehradSm

It will be nice to provide a range of different connectivity metrics, maybe in the description. In my case, I am calculating the `pairwise_spectral_granger_prediction` and my values are between 0...

mkkubins

Speed/Memory Bottlenecks

5

+ Computing the cross-spectra + Minimum phase-decomposition

edeno

Allow filtering of frequencies

2

edeno

Some options: + use efficient c code like xarray does with [`rolling`](http://xarray.pydata.org/en/stable/computation.html#rolling-window-operations) and [bottleneck](https://github.com/kwgoodman/bottleneck/tree/master/bottleneck) + continue to use numpy strides, but this doesn't scale well. See [here](http://scikit-image.org/docs/0.10.x/api/skimage.util.html#view-as-windows) and [here](https://stackoverflow.com/questions/4936620/using-strides-for-an-efficient-moving-average-filter)

edeno

Makes it more generic for future methods

edeno

edeno

[JOSS] Consider moving to conda-forge?

2

I am curious: Why do you ship `spectral_connectivity` on a personal conda channel, instead of on [conda-forge](https://conda-forge.org/)? Shipping on conda-forge would have the advantage of re-using the huge community structure,...

sappelhoff

pairwise granger causality clarification

1

Since the granger causality prediction is directed and asymmetric — I just wanted to be sure that my interpretation of the output is correct. In the output matrix, does [i,j]...

saarangp