-
Notifications
You must be signed in to change notification settings - Fork 28
/
Copy pathas.neuronlist.html
150 lines (125 loc) · 8.6 KB
/
as.neuronlist.html
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
<!DOCTYPE html>
<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Make a list of neurons that can be used for coordinate plotting/analysis — as.neuronlist • nat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Make a list of neurons that can be used for coordinate plotting/analysis — as.neuronlist"><meta property="og:description" content="Make a list of neurons that can be used for coordinate plotting/analysis"><meta property="og:image" content="/logo.svg"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
<![endif]--></head><body data-spy="scroll" data-target="#toc">
<div class="container template-reference-topic">
<header><div class="navbar navbar-default navbar-fixed-top" role="navigation">
<div class="container">
<div class="navbar-header">
<button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar" aria-expanded="false">
<span class="sr-only">Toggle navigation</span>
<span class="icon-bar"></span>
<span class="icon-bar"></span>
<span class="icon-bar"></span>
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">nat</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">1.10.4</span>
</span>
</div>
<div id="navbar" class="navbar-collapse collapse">
<ul class="nav navbar-nav"><li>
<a href="../index.html">
<span class="fa fa-home fa-lg"></span>
</a>
</li>
<li>
<a href="../reference/index.html">Reference</a>
</li>
<li class="dropdown">
<a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">
Articles
<span class="caret"></span>
</a>
<ul class="dropdown-menu" role="menu"><li>
<a href="../articles/neurons-intro.html">Introduction to neurons and neuronlists</a>
</li>
<li>
<a href="../articles/neurons-as-graph.html">Working with individual neurons as graph structures</a>
</li>
<li>
<a href="../articles/plotly.html">3D graphics</a>
</li>
<li>
<a href="../articles/NeuroGeometry.html">NeuroGeometry: Analysing 3D morphology of neurons</a>
</li>
</ul></li>
<li>
<a href="../articles/Installation.html">Installation</a>
</li>
<li>
<a href="../index.html#learn">Learn</a>
</li>
<li>
<a href="../index.html#help">Help</a>
</li>
<li>
<a href="../news/index.html">Changelog</a>
</li>
</ul><ul class="nav navbar-nav navbar-right"><li>
<a href="https://natverse.github.io" class="external-link">natverse</a>
</li>
<li>
<a href="https://github.com/natverse/nat" class="external-link">
<span class="fa fa-github fa-lg"></span>
</a>
</li>
</ul></div><!--/.nav-collapse -->
</div><!--/.container -->
</div><!--/.navbar -->
</header><div class="row">
<div class="col-md-9 contents">
<div class="page-header">
<h1>Make a list of neurons that can be used for coordinate plotting/analysis</h1>
<small class="dont-index">Source: <a href="https://github.com/natverse/nat/blob/HEAD/R/neuronlist.R" class="external-link"><code>R/neuronlist.R</code></a></small>
<div class="hidden name"><code>as.neuronlist.Rd</code></div>
</div>
<div class="ref-description">
<p>Make a list of neurons that can be used for coordinate plotting/analysis</p>
</div>
<div id="ref-usage">
<div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">as.neuronlist</span><span class="op">(</span><span class="va">l</span>, <span class="va">...</span><span class="op">)</span>
<span class="co"># S3 method for default</span>
<span class="fu">as.neuronlist</span><span class="op">(</span><span class="va">l</span>, df <span class="op">=</span> <span class="cn">NULL</span>, AddClassToNeurons <span class="op">=</span> <span class="cn">TRUE</span>, <span class="va">...</span><span class="op">)</span></code></pre></div>
</div>
<div id="arguments">
<h2>Arguments</h2>
<dl><dt>l</dt>
<dd><p>An existing list or a single neuron to start a list</p></dd>
<dt>...</dt>
<dd><p>Additional arguments passed to methods</p></dd>
<dt>df</dt>
<dd><p>the data.frame to attach with additional metadata.</p></dd>
<dt>AddClassToNeurons</dt>
<dd><p>Whether to ensure neurons have class <code>neuron</code>
(see details).</p></dd>
</dl></div>
<div id="value">
<h2>Value</h2>
<p>neuronlist with <code>attr('df')</code></p>
</div>
<div id="details">
<h2>Details</h2>
<p>Note that <code>as.neuronlist</code> can cope with both <code>neurons</code> and
<code>dotprops</code> objects but <code>AddClassToNeurons</code> will only apply to
things that look like neurons but don't have a class of <code>neuron</code>.</p>
<p>See <code><a href="neuronlist.html">neuronlist</a></code> details for more information.</p>
</div>
<div id="see-also">
<h2>See also</h2>
<div class="dont-index"><p><code><a href="is.neuronlist.html">is.neuronlist</a></code>,<code><a href="neuron.html">is.neuron</a></code>,<code><a href="dotprops.html">is.dotprops</a></code></p></div>
</div>
</div>
<div class="col-md-3 hidden-xs hidden-sm" id="pkgdown-sidebar">
<nav id="toc" data-toggle="toc" class="sticky-top"><h2 data-toc-skip>Contents</h2>
</nav></div>
</div>
<footer><div class="copyright">
<p></p><p>Developed by Gregory Jefferis, James Manton, Sridhar Jagannathan.</p>
</div>
<div class="pkgdown">
<p></p><p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.1.</p>
</div>
</footer></div>
</body></html>