diff --git a/paper.md b/paper.md new file mode 100644 index 00000000..c8264092 --- /dev/null +++ b/paper.md @@ -0,0 +1,82 @@ +--- +title: 'Unfold.jl: Regression models for Cognitive Neuroscience' +tags: + - Julia + - EEG + - neuroimaging +authors: + - name: Benedikt V. Ehinger + orcid: 0000-0002-6276-3332 + equal-contrib: false + affiliation: "1, 2" # (Multiple affiliations must be quoted) + +affiliations: + - name: Stuttgart Center for Simulation Science, University of Stuttgart, Germany + index: 1 + - name: Institute for Visualization and Interactive Systems, University of Stuttgart, Germany + index: 2 +date: 06 November 2023 +bibliography: paper.bib +--- + +# Summary + + +Overlapping event responses, (non-)linear effects and confounds, outliers, item effects - all pretty common features limiting the application of neuroimaging methods. Here, we focus on EEG without loss of generality. Especially event-related potentials in naturalistic paradigms (e.g. ET+EEG, VR+EEG, MoBi) but also classical paradigms (evidence Integration, language, even oddball tasks) require such techniques. + +Unfold.jl implements the model fitting based on the popular wilkinson~formula+syntax. It is feature-par with matlab-unfold. In addition it offers speed-improvements (up to 100x on GPUs) and extensions for outlier-robust fits, back2back regression, and mixed models. + +While implemented in Julia, it is straight forward to also call from Python and tutorials are available. + + + +# Statement of need + + + +# Mathematics + +Single dollars ($) are required for inline mathematics e.g. $f(x) = e^{\pi/x}$ + +Double dollars make self-standing equations: + +$$\Theta(x) = \left\{\begin{array}{l} +0\textrm{ if } x < 0\cr +1\textrm{ else} +\end{array}\right.$$ + +You can also use plain \LaTeX for equations +\begin{equation}\label{eq:fourier} +\hat f(\omega) = \int_{-\infty}^{\infty} f(x) e^{i\omega x} dx +\end{equation} +and refer to \autoref{eq:fourier} from text. + +# Citations + +Citations to entries in paper.bib should be in +[rMarkdown](http://rmarkdown.rstudio.com/authoring_bibliographies_and_citations.html) +format. + +If you want to cite a software repository URL (e.g. something on GitHub without a preferred +citation) then you can do it with the example BibTeX entry below for @fidgit. + +For a quick reference, the following citation commands can be used: +- `@author:2001` -> "Author et al. (2001)" +- `[@author:2001]` -> "(Author et al., 2001)" +- `[@author1:2001; @author2:2001]` -> "(Author1 et al., 2001; Author2 et al., 2002)" + +# Figures + +Figures can be included like this: +![Caption for example figure.\label{fig:example}](figure.png) +and referenced from text using \autoref{fig:example}. + +Figure sizes can be customized by adding an optional second parameter: +![Caption for example figure.](figure.png){ width=20% } + +# Acknowledgements + +We acknowledge contributions from Brigitta Sipocz, Syrtis Major, and Semyeong +Oh, and support from Kathryn Johnston during the genesis of this project. + +# References