build based on 372accc

unfoldtoolbox · Oct 25, 2023 · ca5743c · ca5743c
1 parent cde2cb6
commit ca5743c
Show file tree

Hide file tree

Showing 39 changed files with 108 additions and 313 deletions.
diff --git a/dev/.documenter-siteinfo.json b/dev/.documenter-siteinfo.json
@@ -1 +1 @@
-{"documenter":{"julia_version":"1.9.3","generation_timestamp":"2023-10-24T20:47:16","documenter_version":"1.1.2"}}
+{"documenter":{"julia_version":"1.9.3","generation_timestamp":"2023-10-25T10:12:57","documenter_version":"1.1.2"}}
diff --git a/dev/api/index.html b/dev/api/index.html
diff --git a/dev/assets/logo.svg b/dev/assets/logo.svg
diff --git a/dev/generated/reference/positions/a31d64a3.png b/dev/generated/reference/positions/a31d64a3.png
diff --git a/dev/generated/reference/positions/index.html b/dev/generated/reference/positions/index.html
@@ -0,0 +1,42 @@
+<!DOCTYPE html>
+<html lang="en"><head><meta charset="UTF-8"/><meta name="viewport" content="width=device-width, initial-scale=1.0"/><title>Convert 3D positions / montages to 2D layouts · UnfoldMakie.jl</title><meta name="title" content="Convert 3D positions / montages to 2D layouts · UnfoldMakie.jl"/><meta property="og:title" content="Convert 3D positions / montages to 2D layouts · UnfoldMakie.jl"/><meta property="twitter:title" content="Convert 3D positions / montages to 2D layouts · UnfoldMakie.jl"/><meta name="description" content="Documentation for UnfoldMakie.jl."/><meta property="og:description" content="Documentation for UnfoldMakie.jl."/><meta property="twitter:description" content="Documentation for UnfoldMakie.jl."/><meta property="og:url" content="https://unfoldtoolbox.github.io/UnfoldMakie.jl/generated/reference/positions/"/><meta property="twitter:url" content="https://unfoldtoolbox.github.io/UnfoldMakie.jl/generated/reference/positions/"/><link rel="canonical" href="https://unfoldtoolbox.github.io/UnfoldMakie.jl/generated/reference/positions/"/><script data-outdated-warner src="../../../assets/warner.js"></script><link href="https://cdnjs.cloudflare.com/ajax/libs/lato-font/3.0.0/css/lato-font.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/juliamono/0.050/juliamono.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/fontawesome.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/solid.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.4.2/css/brands.min.css" rel="stylesheet" type="text/css"/><link href="https://cdnjs.cloudflare.com/ajax/libs/KaTeX/0.16.8/katex.min.css" rel="stylesheet" type="text/css"/><script>documenterBaseURL="../../.."</script><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.3.6/require.min.js" data-main="../../../assets/documenter.js"></script><script src="../../../search_index.js"></script><script src="../../../siteinfo.js"></script><script src="../../../../versions.js"></script><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../../assets/themes/documenter-dark.css" data-theme-name="documenter-dark" data-theme-primary-dark/><link class="docs-theme-link" rel="stylesheet" type="text/css" href="../../../assets/themes/documenter-light.css" data-theme-name="documenter-light" data-theme-primary/><script src="../../../assets/themeswap.js"></script></head><body><div id="documenter"><nav class="docs-sidebar"><a class="docs-logo" href="../../../"><img src="../../../assets/logo.svg" alt="UnfoldMakie.jl logo"/></a><div class="docs-package-name"><span class="docs-autofit"><a href="../../../">UnfoldMakie.jl</a></span></div><button class="docs-search-query input is-rounded is-small is-clickable my-2 mx-auto py-1 px-2" id="documenter-search-query">Search docs (Ctrl + /)</button><ul class="docs-menu"><li><a class="tocitem" href="../../../">UnfoldMakie Documentation</a></li><li><span class="tocitem">Visualizations-Types</span><ul><li><a class="tocitem" href="../../tutorials/erp/">ERP plot</a></li><li><a class="tocitem" href="../../../tutorials/butterfly/">Butterfly Plot</a></li><li><a class="tocitem" href="../../../tutorials/designmatrix/">Designmatrix</a></li><li><a class="tocitem" href="../../../tutorials/erpimage/">ERP Image</a></li><li><a class="tocitem" href="../../../tutorials/parallelcoordinates/">Parallel Coordinates Plot</a></li><li><a class="tocitem" href="../../../tutorials/topoplot/">Topo Plot</a></li><li><a class="tocitem" href="../../../tutorials/topoplotseries/">Topo Plot Series</a></li><li><a class="tocitem" href="../../tutorials/circTopo/">Circular TopoPlot</a></li></ul></li><li><span class="tocitem">How To</span><ul><li><a class="tocitem" href="../../../how_to/position2color/">Butterfly Colormap</a></li><li><a class="tocitem" href="../../../how_to/fix_pcp/">Fix Parallel Coordinates Plot</a></li><li><a class="tocitem" href="../../../how_to/hide_deco/">Hide Axis Spines and Decorations</a></li><li><a class="tocitem" href="../../../how_to/mult_vis_in_fig/">Include multiple Visualizations in one Figure</a></li><li><a class="tocitem" href="../../../how_to/show_oob_labels/">Show out of Bounds Label</a></li></ul></li><li><span class="tocitem">Reference</span><ul><li class="is-active"><a class="tocitem" href>Convert 3D positions / montages to 2D layouts</a><ul class="internal"><li class="toplevel"><a class="tocitem" href="#project-from-3D-electrode-locations-to-2D"><span>project from 3D electrode locations to 2D</span></a></li></ul></li></ul></li><li><a class="tocitem" href="../../../api/">API</a></li><li><a class="tocitem" href="../../../helper/">Utilities</a></li></ul><div class="docs-version-selector field has-addons"><div class="control"><span class="docs-label button is-static is-size-7">Version</span></div><div class="docs-selector control is-expanded"><div class="select is-fullwidth is-size-7"><select id="documenter-version-selector"></select></div></div></div></nav><div class="docs-main"><header class="docs-navbar"><a class="docs-sidebar-button docs-navbar-link fa-solid fa-bars is-hidden-desktop" id="documenter-sidebar-button" href="#"></a><nav class="breadcrumb"><ul class="is-hidden-mobile"><li><a class="is-disabled">Reference</a></li><li class="is-active"><a href>Convert 3D positions / montages to 2D layouts</a></li></ul><ul class="is-hidden-tablet"><li class="is-active"><a href>Convert 3D positions / montages to 2D layouts</a></li></ul></nav><div class="docs-right"><a class="docs-navbar-link" href="https://github.com/unfoldtoolbox/UnfoldMakie.jl/blob/main/docs/literate/reference/positions.jl#" title="Edit source on GitHub"><span class="docs-icon fa-solid"></span></a><a class="docs-settings-button docs-navbar-link fa-solid fa-gear" id="documenter-settings-button" href="#" title="Settings"></a><a class="docs-article-toggle-button fa-solid fa-chevron-up" id="documenter-article-toggle-button" href="javascript:;" title="Collapse all docstrings"></a></div></header><article class="content" id="documenter-page"><pre><code class="language-julia hljs">using UnfoldMakie
+using CairoMakie
+using TopoPlots
+using PyMNE</code></pre><pre class="documenter-example-output"><code class="nohighlight hljs ansi">    CondaPkg Found dependencies: /home/runner/.julia/packages/PyMNE/HGgbW/CondaPkg.toml
+    CondaPkg Found dependencies: /home/runner/.julia/packages/PythonCall/qTEA1/CondaPkg.toml
+    CondaPkg Dependencies already up to date</code></pre><h1 id="get-MNE-positions"><a class="docs-heading-anchor" href="#get-MNE-positions">get MNE-positions</a><a id="get-MNE-positions-1"></a><a class="docs-heading-anchor-permalink" href="#get-MNE-positions" title="Permalink"></a></h1><p>Generate a fake MNE structure <a href="https://mne.tools/0.24/auto_examples/visualization/eeglab_head_sphere.html">taken from mne documentation</a></p><pre><code class="language-julia hljs">biosemi_montage = PyMNE.channels.make_standard_montage(&quot;biosemi64&quot;)
+n_channels = length(biosemi_montage.ch_names)
+fake_info = PyMNE.create_info(ch_names=biosemi_montage.ch_names, sfreq=250.,
+                            ch_types=&quot;eeg&quot;)
+data = rand(n_channels,1) * 1e-6
+fake_evoked = PyMNE.EvokedArray(data, fake_info)
+fake_evoked.set_montage(biosemi_montage)
+
+pos = to_positions(fake_evoked)</code></pre><pre class="documenter-example-output"><code class="nohighlight hljs ansi">64-element Vector{Point2{Float64}}:
+ [0.34935274876763384, 0.8914697618166454]
+ [0.2285454515991697, 0.8299153694246765]
+ [0.3239207434789678, 0.8210416675361911]
+ [0.38009721906796695, 0.7346772379558053]
+ [0.28116929732806945, 0.7288908776450373]
+ [0.19598811803244962, 0.729048111114921]
+ [0.13267223773863893, 0.7340421555641459]
+ [0.07111784534666996, 0.6132348583956815]
+ [0.1381378125628734, 0.6118022611559795]
+ [0.2400936018380034, 0.6086174147856195]
+ ⋮
+ [0.612772564740614, 0.34981504242270145]
+ [0.5864401194985318, 0.2239606378043266]
+ [0.6853680412384293, 0.2297469981150946]
+ [0.7705492205340492, 0.22958976464521094]
+ [0.8338651008278599, 0.22459572019598625]
+ [0.8710458357539724, 0.19758233504967118]
+ [0.7379918869673291, 0.12872250633545543]
+ [0.6426165950875308, 0.13759620822394072]
+ [0.6171845897988648, 0.06716811394348651]</code></pre><h1 id="project-from-3D-electrode-locations-to-2D"><a class="docs-heading-anchor" href="#project-from-3D-electrode-locations-to-2D">project from 3D electrode locations to 2D</a><a id="project-from-3D-electrode-locations-to-2D-1"></a><a class="docs-heading-anchor-permalink" href="#project-from-3D-electrode-locations-to-2D" title="Permalink"></a></h1><pre><code class="language-julia hljs">pos3d = hcat(values(pyconvert(Dict,biosemi_montage.get_positions()[&quot;ch_pos&quot;]))...)
+
+pos2 = to_positions(pos3d)
+
+f = Figure(resolution=(600,300))
+scatter(f[1,1],pos3d[1:2,:])
+scatter(f[1,2],pos2)
+f</code></pre><img src="a31d64a3.png" alt="Example block output"/><p>as one can see, the &quot;naive&quot; transform of just dropping the third dimension doesnt really work (left). We rather have to project the chanels to a sphere and unfold it (right)</p><hr/><p><em>This page was generated using <a href="https://github.com/fredrikekre/Literate.jl">Literate.jl</a>.</em></p></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../../../how_to/show_oob_labels/">« Show out of Bounds Label</a><a class="docs-footer-nextpage" href="../../../api/">API »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.1.2 on <span class="colophon-date" title="Wednesday 25 October 2023 10:12">Wednesday 25 October 2023</span>. Using Julia version 1.9.3.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/generated/tutorials/circTopo/372ce532.png b/dev/generated/tutorials/circTopo/372ce532.png
diff --git a/dev/generated/tutorials/circTopo/5b95213d.png b/dev/generated/tutorials/circTopo/5b95213d.png
Original file line number	Diff line number	Diff line change
		@@ -1 +1 @@
		{"documenter":{"julia_version":"1.9.3","generation_timestamp":"2023-10-24T20:47:16","documenter_version":"1.1.2"}}
		{"documenter":{"julia_version":"1.9.3","generation_timestamp":"2023-10-25T10:12:57","documenter_version":"1.1.2"}}