bio-incanter 0.1.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- data/Gemfile +14 -0
- data/Gemfile.lock +35 -0
- data/LICENSE.txt +20 -0
- data/README.rdoc +26 -0
- data/Rakefile +51 -0
- data/VERSION +1 -0
- data/bio-incanter.gemspec +136 -0
- data/doc/AreaChart.html +473 -0
- data/doc/BarChart.html +519 -0
- data/doc/BlandAltman.html +453 -0
- data/doc/BoxPlot.html +474 -0
- data/doc/FunctionPlot.html +496 -0
- data/doc/HeatMap.html +554 -0
- data/doc/Histogram.html +444 -0
- data/doc/LICENSE_txt.html +130 -0
- data/doc/LineChart.html +479 -0
- data/doc/Object.html +278 -0
- data/doc/PieChart.html +455 -0
- data/doc/README_rdoc.html +152 -0
- data/doc/ScatterPlot.html +489 -0
- data/doc/TimeChart.html +473 -0
- data/doc/TracePlot.html +416 -0
- data/doc/XyPlot.html +477 -0
- data/doc/created.rid +18 -0
- data/doc/images/add.png +0 -0
- data/doc/images/brick.png +0 -0
- data/doc/images/brick_link.png +0 -0
- data/doc/images/bug.png +0 -0
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- data/doc/images/date.png +0 -0
- data/doc/images/delete.png +0 -0
- data/doc/images/find.png +0 -0
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- data/doc/images/macFFBgHack.png +0 -0
- data/doc/images/package.png +0 -0
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- data/doc/images/page_white_text.png +0 -0
- data/doc/images/page_white_width.png +0 -0
- data/doc/images/plugin.png +0 -0
- data/doc/images/ruby.png +0 -0
- data/doc/images/tag_blue.png +0 -0
- data/doc/images/tag_green.png +0 -0
- data/doc/images/transparent.png +0 -0
- data/doc/images/wrench.png +0 -0
- data/doc/images/wrench_orange.png +0 -0
- data/doc/images/zoom.png +0 -0
- data/doc/index.html +106 -0
- data/doc/js/darkfish.js +153 -0
- data/doc/js/jquery.js +18 -0
- data/doc/js/navigation.js +142 -0
- data/doc/js/search.js +94 -0
- data/doc/js/search_index.js +1 -0
- data/doc/js/searcher.js +228 -0
- data/doc/rdoc.css +543 -0
- data/doc/table_of_contents.html +295 -0
- data/lib/area_chart/area_chart.rb +106 -0
- data/lib/bar_chart/bar_chart.rb +142 -0
- data/lib/bio-incanter.rb +108 -0
- data/lib/bland_altman/bland_altman.rb +120 -0
- data/lib/box_plot/box_plot.rb +136 -0
- data/lib/function_plot/function_plot.rb +137 -0
- data/lib/histogram/histogram.rb +139 -0
- data/lib/java/clocomics-1.0.0-standalone.jar +0 -0
- data/lib/line_chart/line_chart.rb +148 -0
- data/lib/pie_chart/pie_chart.rb +121 -0
- data/lib/qq_plot/qq_plot.rb +105 -0
- data/lib/scatter_plot/scatter_plot.rb +162 -0
- data/lib/time_chart/time_chart.rb +142 -0
- data/lib/trace_plot/trace_plot.rb +108 -0
- data/lib/xy_plot/xy_plot.rb +149 -0
- data/spec/bar_chart_spec.rb +25 -0
- data/spec/bland_altman_spec.rb +26 -0
- data/spec/box_plot_spec.rb +25 -0
- data/spec/function_plot_spec.rb +27 -0
- data/spec/histogram_spec.rb +24 -0
- data/spec/line_chart_spec.rb +25 -0
- data/spec/pie_chart_spec.rb +25 -0
- data/spec/qq_plot_spec.rb +24 -0
- data/spec/scatter_plot_spec.rb +26 -0
- data/spec/spec_helper.rb +13 -0
- data/spec/time_chart_spec.rb +26 -0
- data/spec/trace_plot_spec.rb +24 -0
- data/spec/xy_plot_spec.rb +25 -0
- metadata +196 -0
data/doc/Object.html
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<h1 class="class">class Object</h1>
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<!-- Methods -->
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<pre><span class="ruby-comment"># File lib/bio-incanter.rb, line 26</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">check_grp</span>(<span class="ruby-identifier">grp</span>)
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<span class="ruby-identifier">grp</span>.<span class="ruby-identifier">each</span>{ <span class="ruby-operator">|</span><span class="ruby-identifier">item</span><span class="ruby-operator">|</span>
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<span class="ruby-keyword">if</span> <span class="ruby-identifier">item</span>.<span class="ruby-identifier">class!</span>= <span class="ruby-constant">String</span>
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<span class="ruby-identifier">raise</span> <span class="ruby-string">"Error : Vector of class must be String"</span>
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}
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<span class="ruby-keyword">return</span> <span class="ruby-identifier">grp</span>
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<span class="ruby-keyword">end</span></pre>
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<pre><span class="ruby-comment"># File lib/bio-incanter.rb, line 35</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">check_val</span>(<span class="ruby-identifier">value</span>)
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<span class="ruby-identifier">value</span>.<span class="ruby-identifier">each</span> {<span class="ruby-operator">|</span><span class="ruby-identifier">item</span><span class="ruby-operator">|</span>
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<span class="ruby-keyword">if</span> <span class="ruby-identifier">item</span>.<span class="ruby-identifier">class!</span>= <span class="ruby-constant">Float</span>
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<span class="ruby-identifier">raise</span> <span class="ruby-string">"Error : Vector of point must be Double"</span>
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}
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<span class="ruby-keyword">return</span> <span class="ruby-identifier">value</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">check_val_int</span>(<span class="ruby-identifier">value</span>)
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<h1 class="class">class PieChart</h1>
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<!-- Methods -->
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<pre><span class="ruby-comment"># File lib/pie_chart/pie_chart.rb, line 2</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">initialize</span>(<span class="ruby-identifier">group</span>,<span class="ruby-identifier">value</span>,<span class="ruby-identifier">params</span>)
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<pre><span class="ruby-comment"># File lib/pie_chart/pie_chart.rb, line 8</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">check_par</span>(<span class="ruby-identifier">params</span>)
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<span class="ruby-identifier">hash</span> = <span class="ruby-constant">Hash</span>.<span class="ruby-identifier">new</span>
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<span class="ruby-identifier">permitted</span> = [<span class="ruby-string">"title"</span>,<span class="ruby-string">"vertical"</span>,<span class="ruby-string">"legend"</span>,<span class="ruby-string">"width"</span>,<span class="ruby-string">"height"</span>,<span class="ruby-string">"file_name"</span>]
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<pre><span class="ruby-comment"># File lib/pie_chart/pie_chart.rb, line 58</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">getGroup</span>
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<pre><span class="ruby-comment"># File lib/pie_chart/pie_chart.rb, line 66</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">getParams</span>
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<pre><span class="ruby-comment"># File lib/pie_chart/pie_chart.rb, line 62</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">getValue</span>
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<span class="method-name">save</span><span
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<pre><span class="ruby-comment"># File lib/pie_chart/pie_chart.rb, line 71</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">save</span>
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<span class="ruby-keyword">begin</span>
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<span class="ruby-identifier">a</span> = <span class="ruby-constant">Java</span><span class="ruby-operator">::</span><span class="ruby-constant">ComDomain</span><span class="ruby-operator">::</span><span class="ruby-identifier">clocomics</span>
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<span class="ruby-identifier">a</span>.<span class="ruby-identifier">save_pie</span>(<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getGroup</span>,<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getValue</span>,<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getParams</span>)
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<span class="ruby-keyword">rescue</span> <span class="ruby-constant">Exception</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">ex</span>
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<div id="method-i-view" class="method-detail ">
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<span class="method-name">view</span><span
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<span class="method-click-advice">click to toggle source</span>
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<pre><span class="ruby-comment"># File lib/pie_chart/pie_chart.rb, line 78</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">view</span>
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<span class="ruby-keyword">begin</span>
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<span class="ruby-identifier">a</span> = <span class="ruby-constant">Java</span><span class="ruby-operator">::</span><span class="ruby-constant">ComDomain</span><span class="ruby-operator">::</span><span class="ruby-identifier">clocomics</span>
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<span class="ruby-identifier">a</span>.<span class="ruby-identifier">view_pie</span>(<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getGroup</span>,<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getValue</span>,<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getParams</span>)
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<span class="ruby-keyword">rescue</span> <span class="ruby-constant">Exception</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">ex</span>
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<span class="ruby-keyword">end</span></pre>
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</section><!-- public-instance-method-details -->
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</section><!-- 5Buntitled-5D -->
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</div><!-- documentation -->
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<footer id="validator-badges">
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<p><a href="http://validator.w3.org/check/referer">[Validate]</a>
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<p>Generated by <a href="https://github.com/rdoc/rdoc">RDoc</a> 3.12.
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<p>Generated with the <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish Rdoc Generator</a> 3.
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