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8 changes: 4 additions & 4 deletions README.md
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Expand Up @@ -42,7 +42,7 @@ Tigramite is a causal time series analysis python package. It allows to efficien
- Mediation class: J. Runge et al. (2015): Identifying causal gateways and mediators in complex spatio-temporal systems. Nature Communications, 6, 8502. http://doi.org/10.1038/ncomms9502
- Mediation class: J. Runge (2015): Quantifying information transfer and mediation along causal pathways in complex systems. Phys. Rev. E, 92(6), 62829. http://doi.org/10.1103/PhysRevE.92.062829
- CMIknn: J. Runge (2018): Conditional Independence Testing Based on a Nearest-Neighbor Estimator of Conditional Mutual Information. In Proceedings of the 21st International Conference on Artificial Intelligence and Statistics. http://proceedings.mlr.press/v84/runge18a.html
- J. Runge, Necessary and sufficient graphical conditions for optimal adjustment sets in causal graphical models with hidden variables, Advances in Neural Information Processing Systems, 2021, 34
- J. Runge, Necessary and sufficient graphical conditions for optimal adjustment sets in causal graphical models with hidden variables, Advances in Neural Information Processing Systems, 2021, 34. https://proceedings.neurips.cc/paper/2021/hash/8485ae387a981d783f8764e508151cd9-Abstract.html

## Features

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- parallel computing script based on mpi4py
- handling of missing values and masks
- p-value correction and confidence interval estimation
- causal effect class to non-parametrically estimate (conditional) causal effects and also mediated causal effects
- causal effect class to non-parametrically estimate (conditional) causal effects and also linear mediated causal effects
- prediction class based on sklearn models including causal feature selection
- GUI covering basic functionality on https://github.com/stbachinger/TigramiteGui

Expand All @@ -66,12 +66,12 @@ Tigramite is a causal time series analysis python package. It allows to efficien
- scipy
- numba

## Optional packages depending on the test
## Optional packages depending on used functions
- scikit-learn>=0.21 # Gaussian Process (GP) Regression
- matplotlib>=3.4.0 # Plotting
- networkx>=2.4 # Plotting
- torch>=1.7 # GPDC torch version
- gpytorch>=1.4 # GPDC gpytorch version
- gpytorch>=1.4 # GPDC torch version
- dcor>=0.5.3 # GPDC distance correlation version

## Installation
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2 changes: 1 addition & 1 deletion docs/_build/html/.buildinfo
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# Sphinx build info version 1
# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
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278 changes: 96 additions & 182 deletions docs/_build/html/_modules/abc.html

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69 changes: 32 additions & 37 deletions docs/_build/html/_modules/index.html
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<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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<!DOCTYPE html>

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<title>Overview: module code &#8212; Tigramite 5.0 documentation</title>
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Expand All @@ -34,23 +25,10 @@ <h3>Navigation</h3>
<li class="right" >
<a href="../py-modindex.html" title="Python Module Index"
>modules</a> |</li>
<li class="nav-item nav-item-0"><a href="../index.html">Tigramite 5.0 documentation</a> &#187;</li>
<li class="nav-item nav-item-0"><a href="../index.html">Tigramite 5.0 documentation</a> &#187;</li>
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Expand All @@ -72,11 +50,27 @@ <h1>All modules for which code is available</h1>
<li><a href="tigramite/models.html">tigramite.models</a></li>
<li><a href="tigramite/pcmci.html">tigramite.pcmci</a></li>
<li><a href="tigramite/plotting.html">tigramite.plotting</a></li>
<li><a href="tigramite/toymodels/structural_causal_processes.html">tigramite.toymodels.structural_causal_processes</a></li>
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Expand All @@ -88,12 +82,13 @@ <h3>Navigation</h3>
<li class="right" >
<a href="../py-modindex.html" title="Python Module Index"
>modules</a> |</li>
<li class="nav-item nav-item-0"><a href="../index.html">Tigramite 5.0 documentation</a> &#187;</li>
<li class="nav-item nav-item-0"><a href="../index.html">Tigramite 5.0 documentation</a> &#187;</li>
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&#169; Copyright 2021, Jakob Runge.
Created using <a href="http://sphinx-doc.org/">Sphinx</a> 1.6.7.
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