-
Notifications
You must be signed in to change notification settings - Fork 40
/
skspec.data.html
320 lines (274 loc) · 14.7 KB
/
skspec.data.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
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
<!DOCTYPE html>
<html xmlns="http://www.w3.org/1999/xhtml">
<head>
<meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
<title>data Package — scikit-spectra 0.3.1-2 documentation</title>
<link rel="stylesheet" href="../_static/basic.css" type="text/css" />
<link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
<link rel="stylesheet" href="../_static/gallery.css" type="text/css" />
<link rel="stylesheet" href="../_static/bootswatch-3.2.0/united/bootstrap.min.css" type="text/css" />
<link rel="stylesheet" href="../_static/bootstrap-sphinx.css" type="text/css" />
<script type="text/javascript">
var DOCUMENTATION_OPTIONS = {
URL_ROOT: '../',
VERSION: '0.3.1-2',
COLLAPSE_INDEX: false,
FILE_SUFFIX: '.html',
HAS_SOURCE: true
};
</script>
<script type="text/javascript" src="../_static/jquery.js"></script>
<script type="text/javascript" src="../_static/underscore.js"></script>
<script type="text/javascript" src="../_static/doctools.js"></script>
<script type="text/javascript" src="http://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML"></script>
<script type="text/javascript" src="../_static/js/jquery-1.11.0.min.js"></script>
<script type="text/javascript" src="../_static/js/jquery-fix.js"></script>
<script type="text/javascript" src="../_static/bootstrap-3.2.0/js/bootstrap.min.js"></script>
<script type="text/javascript" src="../_static/bootstrap-sphinx.js"></script>
<link rel="author" title="About these documents" href="../about.html" />
<link rel="top" title="scikit-spectra 0.3.1-2 documentation" href="../index.html" />
<meta charset='utf-8'>
<meta http-equiv='X-UA-Compatible' content='IE=edge,chrome=1'>
<meta name='viewport' content='width=device-width, initial-scale=1.0, maximum-scale=1'>
<meta name="apple-mobile-web-app-capable" content="yes">
</head>
<body>
<a href="https://github.com/hugadams/scikit-spectra"
class="visible-desktop hidden-xs"><img
id="gh-banner"
style="position: absolute; top: 50px; right: 0; border: 0;"
src="https://s3.amazonaws.com/github/ribbons/forkme_right_red_aa0000.png"
alt="Fork me on GitHub"></a>
<script>
// Adjust banner height.
$(function () {
var navHeight = $(".navbar .container").css("height");
$("#gh-banner").css("top", navHeight);
});
</script>
<div style="background-color: white; text-align: left; padding: 10px 10px 15px 15px">
<a href="../index.html"><img src="../_static/logo.png" border="100" alt="sampledoc"/></a>
</div>
<a href="https://github.com/hugadams/scikit-spectra"
class="visible-desktop hidden-xs"><img
id="gh-banner"
style="position: absolute; top: 50px; right: 0; border: 0;"
src="https://s3.amazonaws.com/github/ribbons/forkme_right_red_aa0000.png"
alt="Fork me on GitHub"></a>
<script>
// Adjust banner height.
$(function () {
var navHeight = $(".navbar .container").css("height");
$("#gh-banner").css("top", navHeight);
});
</script>
<div id="navbar" class="navbar navbar-inverse navbar-default navbar-fixed-top">
<div class="container">
<div class="navbar-header">
<!-- .btn-navbar is used as the toggle for collapsed navbar content -->
<button type="button" class="navbar-toggle" data-toggle="collapse" data-target=".nav-collapse">
<span class="icon-bar"></span>
<span class="icon-bar"></span>
<span class="icon-bar"></span>
</button>
<a class="navbar-brand" href="../index.html">
skspec</a>
<span class="navbar-text navbar-version pull-left"><b>0.3</b></span>
</div>
<div class="collapse navbar-collapse nav-collapse">
<ul class="nav navbar-nav">
<li class="dropdown globaltoc-container">
<a role="button"
id="dLabelGlobalToc"
data-toggle="dropdown"
data-target="#"
href="../index.html">Jump to <b class="caret"></b></a>
<ul class="dropdown-menu globaltoc"
role="menu"
aria-labelledby="dLabelGlobalToc"><ul>
<li class="toctree-l1"><a class="reference internal" href="APIMAIN.html">API</a><ul>
<li class="toctree-l2"><a class="reference internal" href="APIMAIN.html#primary-structures-spectrum-spectra-specstack">Primary Structures: Spectrum, Spectra, SpecStack</a></li>
<li class="toctree-l2"><a class="reference internal" href="APIMAIN.html#index-objects">Index Objects</a></li>
<li class="toctree-l2"><a class="reference internal" href="APIMAIN.html#builtin-datasets">Builtin Datasets</a></li>
<li class="toctree-l2"><a class="reference internal" href="APIMAIN.html#io">IO</a></li>
<li class="toctree-l2"><a class="reference internal" href="APIMAIN.html#plotting">Plotting</a></li>
<li class="toctree-l2"><a class="reference internal" href="APIMAIN.html#graphical-user-interface-gui">Graphical User Interface (GUI)</a></li>
<li class="toctree-l2"><a class="reference internal" href="APIMAIN.html#two-dimensional-correlation-spectroscopy">Two-Dimensional Correlation Spectroscopy</a></li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="../support.html">Support</a><ul>
<li class="toctree-l2"><a class="reference internal" href="../support.html#mailing-list">Mailing List</a></li>
<li class="toctree-l2"><a class="reference internal" href="../support.html#contribute">Contribute</a></li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="../tutorials.html">Tutorials</a><ul>
<li class="toctree-l2"><a class="reference internal" href="../tutorials.html#videos">Videos</a></li>
<li class="toctree-l2"><a class="reference internal" href="../tutorials.html#minutes-to-scikit-spectra">10 Minutes to scikit-spectra</a></li>
<li class="toctree-l2"><a class="reference internal" href="../tutorials.html#ipython-notebooks">IPython Notebooks</a></li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="../install.html">Installation</a><ul>
<li class="toctree-l2"><a class="reference internal" href="../install.html#dependencies">Dependencies</a></li>
<li class="toctree-l2"><a class="reference internal" href="../install.html#pip-install">Pip Install</a></li>
<li class="toctree-l2"><a class="reference internal" href="../install.html#installation-from-source">Installation from source</a></li>
<li class="toctree-l2"><a class="reference internal" href="../install.html#testing-installation">Testing Installation</a></li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="../about.html">About</a><ul>
<li class="toctree-l2"><a class="reference internal" href="../about.html#history-and-background">History and Background</a></li>
<li class="toctree-l2"><a class="reference internal" href="../about.html#related-scipy-libraries">Related Scipy Libraries</a></li>
<li class="toctree-l2"><a class="reference internal" href="../about.html#other-spectroscopy-libraries-tools-in-python">Other Spectroscopy Libraries/Tools in Python</a></li>
<li class="toctree-l2"><a class="reference internal" href="../about.html#about-the-author">About the Author</a></li>
<li class="toctree-l2"><a class="reference internal" href="../about.html#acknowledgements">Acknowledgements</a></li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="../auto_examples/index.html">Examples</a><ul>
<li class="toctree-l2"><a class="reference internal" href="../auto_examples/index.html#general-examples">General examples</a></li>
<li class="toctree-l2"><a class="reference internal" href="../auto_examples/index.html#longer-examples">Longer examples</a></li>
</ul>
</li>
</ul>
</ul>
</li>
<li class="dropdown">
<a role="button"
id="dLabelLocalToc"
data-toggle="dropdown"
data-target="#"
href="#">This Page <b class="caret"></b></a>
<ul class="dropdown-menu localtoc"
role="menu"
aria-labelledby="dLabelLocalToc"><ul>
<li><a class="reference internal" href="#">data Package</a><ul>
<li><a class="reference internal" href="#id1"><tt class="docutils literal"><span class="pre">data</span></tt> Package</a></li>
</ul>
</li>
</ul>
</ul>
</li>
</ul>
<form class="navbar-form navbar-right" action="../search.html" method="get">
<div class="form-group">
<input type="text" name="q" class="form-control" placeholder="Search" />
</div>
<input type="hidden" name="check_keywords" value="yes" />
<input type="hidden" name="area" value="default" />
</form>
</div>
</div>
</div>
<div class="container">
<div class="row">
<div class="sphinxsidebar">
<div class="sphinxsidebarwrapper"><ul>
<li><a class="reference internal" href="#">data Package</a><ul>
<li><a class="reference internal" href="#id1"><tt class="docutils literal"><span class="pre">data</span></tt> Package</a></li>
</ul>
</li>
</ul>
<form action="../search.html" method="get">
<div class="form-group">
<input type="text" name="q" class="form-control" placeholder="Search" />
</div>
<input type="hidden" name="check_keywords" value="yes" />
<input type="hidden" name="area" value="default" />
</form>
</div>
</div>
<div class="col-md-12">
<div class="section" id="data-package">
<h1>data Package<a class="headerlink" href="#data-package" title="Permalink to this headline">¶</a></h1>
<div class="section" id="id1">
<h2><tt class="xref py py-mod docutils literal"><span class="pre">data</span></tt> Package<a class="headerlink" href="#id1" title="Permalink to this headline">¶</a></h2>
<span class="target" id="module-skspec.data"></span><dl class="function">
<dt id="skspec.data.aunps_glass">
<tt class="descclassname">skspec.data.</tt><tt class="descname">aunps_glass</tt><big>(</big><em>*args</em>, <em>**kwargs</em><big>)</big><a class="reference internal" href="../_modules/skspec/data.html#aunps_glass"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#skspec.data.aunps_glass" title="Permalink to this definition">¶</a></dt>
<dd><p>Reeveslab data obtained by Adam Hughes of gold nanoparticles (AuNPs)
on a glass optical fiber; spectrum corresponds to the specular Reflectance.
Please reference skspec if citing.</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field-odd field"><th class="field-name">Parameters:</th><td class="field-body"><p class="first"><strong>style</strong> : int (1,2,or 3</p>
<blockquote class="last">
<div><p>represents three types of AuNPs on fibers. style 1 is very homegenous
coverage. style 2 is fair coverage with early signs of aggregation.
style=3 is poor coverage is many AuNP aggregates.</p>
</div></blockquote>
</td>
</tr>
</tbody>
</table>
<p class="rubric">Notes</p>
<p>style 1 correponds to dataset 5/22/14, fiber 4. style 2 from 9/11/13 fiber 1
and style 3 from 10/1/DTSSP fiber 1. All of these were cropped and resampled
to have exatly 100 columns. Such sampling may exagerate features of the
original dataset, such as the temporal gaps in the style=3 dataset. They were
there in original data, but sampling makes them seem more pronounced or intense.</p>
</dd></dl>
<dl class="function">
<dt id="skspec.data.aunps_water">
<tt class="descclassname">skspec.data.</tt><tt class="descname">aunps_water</tt><big>(</big><em>*args</em>, <em>**kwargs</em><big>)</big><a class="reference internal" href="../_modules/skspec/data.html#aunps_water"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#skspec.data.aunps_water" title="Permalink to this definition">¶</a></dt>
<dd><p>Reeveslab data obtained by Adam Hughes of gold nanoparticles in water.
UV peak is due to residual citrates from citrate reduction in synthesizing
the nanoparticles via the Turkevich method.
Please reference skspec if citing. Added baseline = 234.0 array.</p>
</dd></dl>
<dl class="function">
<dt id="skspec.data.solvent_evap">
<tt class="descclassname">skspec.data.</tt><tt class="descname">solvent_evap</tt><big>(</big><em>*args</em>, <em>**kwargs</em><big>)</big><a class="reference internal" href="../_modules/skspec/data.html#solvent_evap"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#skspec.data.solvent_evap" title="Permalink to this definition">¶</a></dt>
<dd><p>Model solvent evaporation dataset graciously shared by Dr. Isao Noda;
used in his 2004 book Two-Dimensional Correlation Spectroscopy. From
page 47:</p>
<p>‘The system described here is a three-component solution mixture of
polystyrene (PS) dissolved in a 50:50 blblend of metyl etyl ketone (MEK) and
perdeuterated tolune. The initial concentration of PS is about 1.0wt%.
Once the solution mixture is exposed to the open atmosphere, the solvents
start evaporating, and the PS concentraiton increases with time. However,
due to the substantial difference in the volatility of MEK and toluene
coupled with their slightly dissimilar affinity to PS, the composition of
the solution mixture changes as a function of time in a rather complex
manner during hte spontaneous evaporation process.</p>
<p>The transient IR spectra were collected as the two solvents evaporated,
eventually leaving a PS film behind, as shown schematically in Figure 4.1
(A). The measurement was actually made using a horizontal attenuated total
reflectance (ATR) prism.</p>
<p>...</p>
<p>As expected, the intensities of bands at 2980 and 1720 cm-1 due to violatile
MEK and those of bands at 2275 and 820cm-1 assigned to perdeuterated toluene
gradually decrease, while those of PS bands at 3020 and 1450cm-1 increase
with time.’</p>
</dd></dl>
<dl class="function">
<dt id="skspec.data.trip_peaks">
<tt class="descclassname">skspec.data.</tt><tt class="descname">trip_peaks</tt><big>(</big><em>*args</em>, <em>**kwargs</em><big>)</big><a class="reference internal" href="../_modules/skspec/data.html#trip_peaks"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#skspec.data.trip_peaks" title="Permalink to this definition">¶</a></dt>
<dd><dl class="docutils">
<dt>Sample data packaged from 2d Shiege:</dt>
<dd>(<a class="reference external" href="http://sci-tech.ksc.kwansei.ac.jp/~ozaki/2D-shige.htm">http://sci-tech.ksc.kwansei.ac.jp/~ozaki/2D-shige.htm</a>)</dd>
</dl>
<p>Data depicts three changing peaks. Perturbation units is genera</p>
</dd></dl>
</div>
</div>
</div>
</div>
</div>
<footer class="footer">
<div class="container">
<p class="pull-right">
<a href="#">Back to top</a>
<br/>
<div id="sourcelink">
<a href="../_sources/API/skspec.data.txt"
rel="nofollow">Source</a>
</div>
</p>
<p>
© Copyright 2014, Adam Hughes, ReevesLab, George Washington University.<br/>
Created using <a href="http://sphinx.pocoo.org/">Sphinx</a> 1.2.3.<br/>
</p>
</div>
</footer>
</body>
</html>