{
"cells": [
{
"cell_type": "markdown",
"metadata": {},
"source": [
"# Nyaplot Tutorial 2: Interaction with DataFrame"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"I have alreay explained about Nyaplot::DataFrame in tutorial 1, but it's not enough to tell the usefulness. This notebook consists of 2 use case using DataFrame."
]
},
{
"cell_type": "code",
"execution_count": 1,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
""
],
"text/plain": [
"\"if(window['d3'] === undefined ||\\n window['Nyaplot'] === undefined){\\n var path = {\\\"d3\\\":\\\"http://d3js.org/d3.v3.min\\\",\\\"downloadable\\\":\\\"http://cdn.rawgit.com/domitry/d3-downloadable/master/d3-downloadable\\\"};\\n\\n\\n\\n var shim = {\\\"d3\\\":{\\\"exports\\\":\\\"d3\\\"},\\\"downloadable\\\":{\\\"exports\\\":\\\"downloadable\\\"}};\\n\\n require.config({paths: path, shim:shim});\\n\\n\\nrequire(['d3'], function(d3){window['d3']=d3;console.log('finished loading d3');require(['downloadable'], function(downloadable){window['downloadable']=downloadable;console.log('finished loading downloadable');\\n\\n\\tvar script = d3.select(\\\"head\\\")\\n\\t .append(\\\"script\\\")\\n\\t .attr(\\\"src\\\", \\\"http://cdn.rawgit.com/domitry/Nyaplotjs/master/release/nyaplot.js\\\")\\n\\t .attr(\\\"async\\\", true);\\n\\n\\tscript[0][0].onload = script[0][0].onreadystatechange = function(){\\n\\n\\n\\t var event = document.createEvent(\\\"HTMLEvents\\\");\\n\\t event.initEvent(\\\"load_nyaplot\\\",false,false);\\n\\t window.dispatchEvent(event);\\n\\t console.log('Finished loading Nyaplotjs');\\n\\n\\t};\\n\\n\\n});});\\n}\\n\""
]
},
"execution_count": 1,
"metadata": {},
"output_type": "execute_result"
},
{
"data": {
"text/plain": [
"true"
]
},
"execution_count": 1,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"gem 'nyaplot', '0.1.5'\n",
"require 'nyaplot'"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## Case 1: Scatter with original tooltips"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"First, prepare sample data and put it into DataFrame. Then build a scatter plot based on it."
]
},
{
"cell_type": "code",
"execution_count": 2,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"| x | y | name |
|---|
| 0.3776941903756781 | 3.150631669472884 | cat0 |
| 1.16523539526362 | 3.636084983829032 | cat1 |
| 3.4024015690223557 | 1.5265781962652962 | cat2 |
| 0.6478786205183784 | 4.697932060531303 | cat3 |
| 1.502303692675978 | 0.23551205104727635 | cat4 |
| 0.6186835562297704 | 1.5712039108775393 | cat5 |
| 2.360417118852578 | 3.037560696785177 | cat6 |
| 0.9958851328846746 | 3.3965329595925136 | cat7 |
| 1.0207006596250006 | 0.020049783384994968 | cat8 |
| 1.8874015058395726 | 2.973976083790996 | cat9 |
"
],
"text/plain": [
"#0.3776941903756781, :y=>3.150631669472884, :name=>\"cat0\"}, {:x=>1.16523539526362, :y=>3.636084983829032, :name=>\"cat1\"}, {:x=>3.4024015690223557, :y=>1.5265781962652962, :name=>\"cat2\"}, {:x=>0.6478786205183784, :y=>4.697932060531303, :name=>\"cat3\"}, {:x=>1.502303692675978, :y=>0.23551205104727635, :name=>\"cat4\"}, {:x=>0.6186835562297704, :y=>1.5712039108775393, :name=>\"cat5\"}, {:x=>2.360417118852578, :y=>3.037560696785177, :name=>\"cat6\"}, {:x=>0.9958851328846746, :y=>3.3965329595925136, :name=>\"cat7\"}, {:x=>1.0207006596250006, :y=>0.020049783384994968, :name=>\"cat8\"}, {:x=>1.8874015058395726, :y=>2.973976083790996, :name=>\"cat9\"}]>"
]
},
"execution_count": 2,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"samples = Array.new(10).map.with_index{|d,i| 'cat'+i.to_s}\n",
"x=[];y=[];home=[]\n",
"10.times do\n",
" x.push(5*rand)\n",
" y.push(5*rand)\n",
"end\n",
"df = Nyaplot::DataFrame.new({x:x,y:y,name:samples})\n",
"df"
]
},
{
"cell_type": "code",
"execution_count": 3,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/plain": [
"#:scatter, :options=>{:x=>:x, :y=>:y}, :data=>\"4415e395-2c04-483a-a794-91e437f82ff9\"}, @xrange=[0.3776941903756781, 3.4024015690223557], @yrange=[0.020049783384994968, 4.697932060531303]>"
]
},
"execution_count": 3,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"plot = Nyaplot::Plot.new\n",
"plot.x_label(\"weight [kg]\")\n",
"plot.y_label(\"height [m]\")\n",
"sc = plot.add_with_df(df, :scatter, :x, :y)"
]
},
{
"cell_type": "code",
"execution_count": 4,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"\n",
"\n"
],
"text/plain": [
"#[#[#:scatter, :options=>{:x=>:x, :y=>:y}, :data=>\"4415e395-2c04-483a-a794-91e437f82ff9\"}, @xrange=[0.3776941903756781, 3.4024015690223557], @yrange=[0.020049783384994968, 4.697932060531303]>], :options=>{:x_label=>\"weight [kg]\", :y_label=>\"height [m]\", :zoom=>true, :width=>700, :xrange=>[0.3776941903756781, 3.4024015690223557], :yrange=>[0.020049783384994968, 4.697932060531303]}}>], :data=>{\"4415e395-2c04-483a-a794-91e437f82ff9\"=>#0.3776941903756781, :y=>3.150631669472884, :name=>\"cat0\"}, {:x=>1.16523539526362, :y=>3.636084983829032, :name=>\"cat1\"}, {:x=>3.4024015690223557, :y=>1.5265781962652962, :name=>\"cat2\"}, {:x=>0.6478786205183784, :y=>4.697932060531303, :name=>\"cat3\"}, {:x=>1.502303692675978, :y=>0.23551205104727635, :name=>\"cat4\"}, {:x=>0.6186835562297704, :y=>1.5712039108775393, :name=>\"cat5\"}, {:x=>2.360417118852578, :y=>3.037560696785177, :name=>\"cat6\"}, {:x=>0.9958851328846746, :y=>3.3965329595925136, :name=>\"cat7\"}, {:x=>1.0207006596250006, :y=>0.020049783384994968, :name=>\"cat8\"}, {:x=>1.8874015058395726, :y=>2.973976083790996, :name=>\"cat9\"}]>}, :extension=>[]}>"
]
},
"execution_count": 4,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"plot.show"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"The plot above is not contain `name` information, so add it into tool-tip. Use `tooltip_contents` to add contents to tool-tip."
]
},
{
"cell_type": "code",
"execution_count": 5,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"\n",
"\n"
],
"text/plain": [
"#[#[#:scatter, :options=>{:x=>:x, :y=>:y, :tooltip_contents=>[:name]}, :data=>\"4415e395-2c04-483a-a794-91e437f82ff9\"}, @xrange=[0.3776941903756781, 3.4024015690223557], @yrange=[0.020049783384994968, 4.697932060531303]>], :options=>{:x_label=>\"weight [kg]\", :y_label=>\"height [m]\", :zoom=>true, :width=>700, :xrange=>[0.3776941903756781, 3.4024015690223557], :yrange=>[0.020049783384994968, 4.697932060531303]}}>], :data=>{\"4415e395-2c04-483a-a794-91e437f82ff9\"=>#0.3776941903756781, :y=>3.150631669472884, :name=>\"cat0\"}, {:x=>1.16523539526362, :y=>3.636084983829032, :name=>\"cat1\"}, {:x=>3.4024015690223557, :y=>1.5265781962652962, :name=>\"cat2\"}, {:x=>0.6478786205183784, :y=>4.697932060531303, :name=>\"cat3\"}, {:x=>1.502303692675978, :y=>0.23551205104727635, :name=>\"cat4\"}, {:x=>0.6186835562297704, :y=>1.5712039108775393, :name=>\"cat5\"}, {:x=>2.360417118852578, :y=>3.037560696785177, :name=>\"cat6\"}, {:x=>0.9958851328846746, :y=>3.3965329595925136, :name=>\"cat7\"}, {:x=>1.0207006596250006, :y=>0.020049783384994968, :name=>\"cat8\"}, {:x=>1.8874015058395726, :y=>2.973976083790996, :name=>\"cat9\"}]>}, :extension=>[]}>"
]
},
"execution_count": 5,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"sc.tooltip_contents([:name])\n",
"plot.show"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"Tool-tip can include multiple lines, but the DataFrame has only three columns and that's not enough to add more line to tool-tip. Let's add `home` column to it."
]
},
{
"cell_type": "code",
"execution_count": 6,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"| x | y | name | home |
|---|
| 0.3776941903756781 | 3.150631669472884 | cat0 | Kyoto |
| 1.16523539526362 | 3.636084983829032 | cat1 | London |
| 3.4024015690223557 | 1.5265781962652962 | cat2 | Los Angeles |
| 0.6478786205183784 | 4.697932060531303 | cat3 | Kyoto |
| 1.502303692675978 | 0.23551205104727635 | cat4 | Puretoria |
| 0.6186835562297704 | 1.5712039108775393 | cat5 | Los Angeles |
| 2.360417118852578 | 3.037560696785177 | cat6 | London |
| 0.9958851328846746 | 3.3965329595925136 | cat7 | Puretoria |
| 1.0207006596250006 | 0.020049783384994968 | cat8 | Kyoto |
| 1.8874015058395726 | 2.973976083790996 | cat9 | Los Angeles |
"
],
"text/plain": [
"#0.3776941903756781, :y=>3.150631669472884, :name=>\"cat0\", :home=>\"Kyoto\"}, {:x=>1.16523539526362, :y=>3.636084983829032, :name=>\"cat1\", :home=>\"London\"}, {:x=>3.4024015690223557, :y=>1.5265781962652962, :name=>\"cat2\", :home=>\"Los Angeles\"}, {:x=>0.6478786205183784, :y=>4.697932060531303, :name=>\"cat3\", :home=>\"Kyoto\"}, {:x=>1.502303692675978, :y=>0.23551205104727635, :name=>\"cat4\", :home=>\"Puretoria\"}, {:x=>0.6186835562297704, :y=>1.5712039108775393, :name=>\"cat5\", :home=>\"Los Angeles\"}, {:x=>2.360417118852578, :y=>3.037560696785177, :name=>\"cat6\", :home=>\"London\"}, {:x=>0.9958851328846746, :y=>3.3965329595925136, :name=>\"cat7\", :home=>\"Puretoria\"}, {:x=>1.0207006596250006, :y=>0.020049783384994968, :name=>\"cat8\", :home=>\"Kyoto\"}, {:x=>1.8874015058395726, :y=>2.973976083790996, :name=>\"cat9\", :home=>\"Los Angeles\"}]>"
]
},
"execution_count": 6,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"address = ['London', 'Kyoto', 'Los Angeles', 'Puretoria']\n",
"home = Array.new(10,'').map{|d| address.clone.sample}\n",
"df.home = home\n",
"df"
]
},
{
"cell_type": "code",
"execution_count": 7,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"\n",
"\n"
],
"text/plain": [
"#[#[#:scatter, :options=>{:x=>:x, :y=>:y, :tooltip_contents=>[:name, :home]}, :data=>\"4415e395-2c04-483a-a794-91e437f82ff9\"}, @xrange=[0.3776941903756781, 3.4024015690223557], @yrange=[0.020049783384994968, 4.697932060531303]>], :options=>{:x_label=>\"weight [kg]\", :y_label=>\"height [m]\", :zoom=>true, :width=>700, :xrange=>[0.3776941903756781, 3.4024015690223557], :yrange=>[0.020049783384994968, 4.697932060531303]}}>], :data=>{\"4415e395-2c04-483a-a794-91e437f82ff9\"=>#0.3776941903756781, :y=>3.150631669472884, :name=>\"cat0\", :home=>\"Kyoto\"}, {:x=>1.16523539526362, :y=>3.636084983829032, :name=>\"cat1\", :home=>\"London\"}, {:x=>3.4024015690223557, :y=>1.5265781962652962, :name=>\"cat2\", :home=>\"Los Angeles\"}, {:x=>0.6478786205183784, :y=>4.697932060531303, :name=>\"cat3\", :home=>\"Kyoto\"}, {:x=>1.502303692675978, :y=>0.23551205104727635, :name=>\"cat4\", :home=>\"Puretoria\"}, {:x=>0.6186835562297704, :y=>1.5712039108775393, :name=>\"cat5\", :home=>\"Los Angeles\"}, {:x=>2.360417118852578, :y=>3.037560696785177, :name=>\"cat6\", :home=>\"London\"}, {:x=>0.9958851328846746, :y=>3.3965329595925136, :name=>\"cat7\", :home=>\"Puretoria\"}, {:x=>1.0207006596250006, :y=>0.020049783384994968, :name=>\"cat8\", :home=>\"Kyoto\"}, {:x=>1.8874015058395726, :y=>2.973976083790996, :name=>\"cat9\", :home=>\"Los Angeles\"}]>}, :extension=>[]}>"
]
},
"execution_count": 7,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"sc.tooltip_contents([:name, :home])\n",
"plot.show"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"Then, fill points on the scatter in different colors according to 'home' column. To do so, specify column name by `fill_by` method."
]
},
{
"cell_type": "code",
"execution_count": 8,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"| rgb(251,180,174) | rgb(179,205,227) | rgb(204,235,197) | rgb(222,203,228) | rgb(254,217,166) | rgb(255,255,204) | rgb(229,216,189) | rgb(253,218,236) | rgb(242,242,242) |
|---|
| | | | | | | | | |
"
],
"text/plain": [
"#"
]
},
"execution_count": 8,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"colors = Nyaplot::Colors.qual"
]
},
{
"cell_type": "code",
"execution_count": 9,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"\n",
"\n"
],
"text/plain": [
"#[#[#:scatter, :options=>{:x=>:x, :y=>:y, :tooltip_contents=>[:name, :home], :color=>#, :fill_by=>:home}, :data=>\"4415e395-2c04-483a-a794-91e437f82ff9\"}, @xrange=[0.3776941903756781, 3.4024015690223557], @yrange=[0.020049783384994968, 4.697932060531303]>], :options=>{:x_label=>\"weight [kg]\", :y_label=>\"height [m]\", :zoom=>true, :width=>700, :xrange=>[0.3776941903756781, 3.4024015690223557], :yrange=>[0.020049783384994968, 4.697932060531303]}}>], :data=>{\"4415e395-2c04-483a-a794-91e437f82ff9\"=>#0.3776941903756781, :y=>3.150631669472884, :name=>\"cat0\", :home=>\"Kyoto\"}, {:x=>1.16523539526362, :y=>3.636084983829032, :name=>\"cat1\", :home=>\"London\"}, {:x=>3.4024015690223557, :y=>1.5265781962652962, :name=>\"cat2\", :home=>\"Los Angeles\"}, {:x=>0.6478786205183784, :y=>4.697932060531303, :name=>\"cat3\", :home=>\"Kyoto\"}, {:x=>1.502303692675978, :y=>0.23551205104727635, :name=>\"cat4\", :home=>\"Puretoria\"}, {:x=>0.6186835562297704, :y=>1.5712039108775393, :name=>\"cat5\", :home=>\"Los Angeles\"}, {:x=>2.360417118852578, :y=>3.037560696785177, :name=>\"cat6\", :home=>\"London\"}, {:x=>0.9958851328846746, :y=>3.3965329595925136, :name=>\"cat7\", :home=>\"Puretoria\"}, {:x=>1.0207006596250006, :y=>0.020049783384994968, :name=>\"cat8\", :home=>\"Kyoto\"}, {:x=>1.8874015058395726, :y=>2.973976083790996, :name=>\"cat9\", :home=>\"Los Angeles\"}]>}, :extension=>[]}>"
]
},
"execution_count": 9,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"sc.color(colors)\n",
"sc.fill_by(:home)\n",
"plot.show"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"Use `shape_by` method to change shape according to value in a column."
]
},
{
"cell_type": "code",
"execution_count": 10,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"\n",
"\n"
],
"text/plain": [
"#[#[#:scatter, :options=>{:x=>:x, :y=>:y, :tooltip_contents=>[:name, :home], :color=>#, :fill_by=>:home, :shape_by=>:home}, :data=>\"4415e395-2c04-483a-a794-91e437f82ff9\"}, @xrange=[0.3776941903756781, 3.4024015690223557], @yrange=[0.020049783384994968, 4.697932060531303]>], :options=>{:x_label=>\"weight [kg]\", :y_label=>\"height [m]\", :zoom=>true, :width=>700, :xrange=>[0.3776941903756781, 3.4024015690223557], :yrange=>[0.020049783384994968, 4.697932060531303]}}>], :data=>{\"4415e395-2c04-483a-a794-91e437f82ff9\"=>#0.3776941903756781, :y=>3.150631669472884, :name=>\"cat0\", :home=>\"Kyoto\"}, {:x=>1.16523539526362, :y=>3.636084983829032, :name=>\"cat1\", :home=>\"London\"}, {:x=>3.4024015690223557, :y=>1.5265781962652962, :name=>\"cat2\", :home=>\"Los Angeles\"}, {:x=>0.6478786205183784, :y=>4.697932060531303, :name=>\"cat3\", :home=>\"Kyoto\"}, {:x=>1.502303692675978, :y=>0.23551205104727635, :name=>\"cat4\", :home=>\"Puretoria\"}, {:x=>0.6186835562297704, :y=>1.5712039108775393, :name=>\"cat5\", :home=>\"Los Angeles\"}, {:x=>2.360417118852578, :y=>3.037560696785177, :name=>\"cat6\", :home=>\"London\"}, {:x=>0.9958851328846746, :y=>3.3965329595925136, :name=>\"cat7\", :home=>\"Puretoria\"}, {:x=>1.0207006596250006, :y=>0.020049783384994968, :name=>\"cat8\", :home=>\"Kyoto\"}, {:x=>1.8874015058395726, :y=>2.973976083790996, :name=>\"cat9\", :home=>\"Los Angeles\"}]>}, :extension=>[]}>"
]
},
"execution_count": 10,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"sc.color(colors)\n",
"sc.shape_by(:home)\n",
"plot.show"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## Case 2: Multiple panes"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"DataFrame is also useful when visualizing data in multiple panes. Let's create plot from data about mutation. \n",
"First, fetch data from csv file. (All data used in this Tutorial is included in Nyaplot's repository: /examples/notebook/data/*)"
]
},
{
"cell_type": "code",
"execution_count": 11,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"| mutation | blood | set1 | set2 | set3 | set12 | set21 | set31 |
|---|
| G>A | 0.0 | 0.019230769230769232 | 0.0 | 0.48214285714285715 | 0.0 | 0.0 | 0.4782608695652174 |
| C>T | 0.0 | 0.42592592592592593 | 0.0 | 0.0 | 0.375 | 0.0 | 0.0 |
| C>G | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.525 | 0.0 |
| C>A | 0.0 | 0.0 | 0.1935483870967742 | 0.0 | 0.0 | 0.4666666666666667 | 0.0 |
| C>A | 0.0 | 0.0 | 0.08333333333333333 | 0.0 | 0.0 | 0.5161290322580645 | 0.0 |
| G>T | 0.0 | 0.0 | 0.0 | 0.0 | 0.4444444444444444 | 0.0 | 0.0 |
| C>G | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.4 |
| C>A | 0.0 | 0.0 | 0.03333333333333333 | 0.0 | 0.0 | 0.42857142857142855 | 0.0 |
| A>C | 0.0 | 0.6153846153846154 | 0.0 | 0.0 | 0.5925925925925926 | 0.0 | 0.0 |
| C>A | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.32 | 0.0 |
| C>A | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.4230769230769231 | 0.0 |
| T>A | 0.0 | 0.525 | 0.0 | 0.0 | 0.5277777777777778 | 0.0 | 0.0 |
| C>T | 0.0 | 0.42857142857142855 | 0.0 | 0.0 | 0.6666666666666666 | 0.0 | 0.0 |
| G>A | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.5 | 0.03225806451612903 |
| T>C | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.3793103448275862 |
| C>T | 0.0 | 0.0 | 0.0 | 0.45714285714285713 | 0.0 | 0.0 | 0.46875 |
| ... | ... | ... | ... | ... | ... | ... | ... |
| A>T | 0.0 | 0.4716981132075472 | 0.0 | 0.014492753623188406 | 0.3142857142857143 | 0.0 | 0.0 |
"
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:set21=>0.5555555555555556, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.0, :set2=>0.3870967741935484, :set3=>0.0, :set12=>0.0, :set21=>0.3, :set31=>0.0}, {:mutation=>\"T>A\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.5769230769230769, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>G\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.4090909090909091, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.0, :set31=>0.46153846153846156}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.5510204081632653, :set12=>0.0, :set21=>0.0, :set31=>0.375}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.4642857142857143, :set12=>0.0, :set21=>0.0, :set31=>0.40625}, {:mutation=>\"T>C\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.3448275862068966, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.0, :set2=>0.58, :set3=>0.0, :set12=>0.0, :set21=>0.5862068965517241, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.5555555555555556, :set12=>0.0, :set21=>0.0, :set31=>0.5185185185185185}, {:mutation=>\"G>T\", :blood=>0.0, :set1=>0.021739130434782608, :set2=>0.0, :set3=>0.02631578947368421, :set12=>0.3103448275862069, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>C\", :blood=>0.0, :set1=>0.0, :set2=>0.25, :set3=>0.0, :set12=>0.0, :set21=>0.7741935483870968, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.48484848484848486, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.047619047619047616, :set2=>0.0, :set3=>0.023809523809523808, :set12=>0.759493670886076, :set21=>0.5841584158415841, :set31=>0.47126436781609193}, {:mutation=>\"A>C\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.5833333333333334, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>G\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.5757575757575758, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.5384615384615384, :set12=>0.0, :set21=>0.0, :set31=>0.3333333333333333}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.0, :set2=>0.696969696969697, :set3=>0.0, :set12=>0.0, :set21=>0.5789473684210527, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.0, :set2=>0.08, :set3=>0.0, :set12=>0.0, :set21=>0.5925925925925926, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.37037037037037035, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.0, :set31=>0.5333333333333333}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.6444444444444445, :set12=>0.0, :set21=>0.0, :set31=>0.4090909090909091}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.2692307692307692, :set12=>0.0, :set21=>0.0, :set31=>0.40625}, {:mutation=>\"T>C\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.5806451612903226, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.49206349206349204, :set2=>0.0, :set3=>0.0, :set12=>0.6470588235294118, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.0, :set2=>0.5238095238095238, :set3=>0.0, :set12=>0.0, :set21=>0.42857142857142855, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.5853658536585366, :set12=>0.0, :set21=>0.0, :set31=>0.5}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.48, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.5370370370370371, :set2=>0.0, :set3=>0.0, :set12=>0.4857142857142857, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.5882352941176471, :set2=>0.0, :set3=>0.0, :set12=>0.3055555555555556, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>C\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.5365853658536586, :set12=>0.0, :set21=>0.0, :set31=>0.5172413793103449}, {:mutation=>\"G>T\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.5238095238095238, :set31=>0.0}, {:mutation=>\"C>A\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.0, :set31=>0.32}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.6388888888888888, :set12=>0.0, :set21=>0.0, :set31=>0.5416666666666666}, {:mutation=>\"T>C\", :blood=>0.0, :set1=>0.0, :set2=>0.0, :set3=>0.0, :set12=>0.68, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.4716981132075472, :set2=>0.0, :set3=>0.014492753623188406, :set12=>0.3142857142857143, :set21=>0.0, :set31=>0.0}]>"
]
},
"execution_count": 11,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"path = File.expand_path(\"../data/first.tab\", __FILE__)\n",
"df = Nyaplot::DataFrame.from_csv(path, sep=\"\\t\")"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"Now I want to plot **SET1** column, but it contains many zero cells. Then filter them out."
]
},
{
"cell_type": "code",
"execution_count": 12,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"| mutation | blood | set1 | set2 | set3 | set12 | set21 | set31 |
|---|
| G>A | 0.0 | 0.019230769230769232 | 0.0 | 0.48214285714285715 | 0.0 | 0.0 | 0.4782608695652174 |
| C>T | 0.0 | 0.42592592592592593 | 0.0 | 0.0 | 0.375 | 0.0 | 0.0 |
| A>C | 0.0 | 0.6153846153846154 | 0.0 | 0.0 | 0.5925925925925926 | 0.0 | 0.0 |
| T>A | 0.0 | 0.525 | 0.0 | 0.0 | 0.5277777777777778 | 0.0 | 0.0 |
| C>T | 0.0 | 0.42857142857142855 | 0.0 | 0.0 | 0.6666666666666666 | 0.0 | 0.0 |
| G>A | 0.0 | 0.45652173913043476 | 0.0 | 0.0 | 0.43478260869565216 | 0.0 | 0.0 |
| C>T | 0.0 | 0.09803921568627451 | 0.0 | 0.0 | 0.37142857142857144 | 0.0 | 0.0 |
| T>A | 0.0 | 0.5769230769230769 | 0.0 | 0.0 | 0.4782608695652174 | 0.0 | 0.0 |
| A>G | 0.0 | 0.43859649122807015 | 0.0 | 0.0 | 0.5142857142857142 | 0.0 | 0.0 |
| T>C | 0.0 | 0.5806451612903226 | 0.0 | 0.0 | 0.6341463414634146 | 0.0 | 0.0 |
| G>A | 0.0 | 0.014705882352941176 | 0.0 | 0.0 | 0.0 | 0.0 | 0.41935483870967744 |
| G>A | 0.0 | 0.6666666666666666 | 0.0 | 0.0 | 0.5 | 0.0 | 0.0 |
| C>T | 0.0 | 0.532258064516129 | 0.0 | 0.0 | 0.5227272727272727 | 0.0 | 0.0 |
| G>A | 0.0 | 0.5652173913043478 | 0.0 | 0.0 | 0.3870967741935484 | 0.0 | 0.0 |
| G>A | 0.0 | 0.42857142857142855 | 0.0 | 0.0 | 0.3333333333333333 | 0.0 | 0.0 |
| C>A | 0.0 | 0.4888888888888889 | 0.0 | 0.0 | 0.43243243243243246 | 0.0 | 0.0 |
| ... | ... | ... | ... | ... | ... | ... | ... |
| A>T | 0.0 | 0.4716981132075472 | 0.0 | 0.014492753623188406 | 0.3142857142857143 | 0.0 | 0.0 |
"
],
"text/plain": [
"#\"G>A\", :blood=>0.0, :set1=>0.019230769230769232, :set2=>0.0, :set3=>0.48214285714285715, :set12=>0.0, :set21=>0.0, :set31=>0.4782608695652174}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.42592592592592593, :set2=>0.0, :set3=>0.0, :set12=>0.375, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>C\", :blood=>0.0, :set1=>0.6153846153846154, :set2=>0.0, :set3=>0.0, :set12=>0.5925925925925926, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>A\", :blood=>0.0, :set1=>0.525, :set2=>0.0, :set3=>0.0, :set12=>0.5277777777777778, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.42857142857142855, :set2=>0.0, :set3=>0.0, :set12=>0.6666666666666666, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.45652173913043476, :set2=>0.0, :set3=>0.0, :set12=>0.43478260869565216, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.09803921568627451, :set2=>0.0, :set3=>0.0, :set12=>0.37142857142857144, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>A\", :blood=>0.0, :set1=>0.5769230769230769, :set2=>0.0, :set3=>0.0, :set12=>0.4782608695652174, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.43859649122807015, :set2=>0.0, :set3=>0.0, :set12=>0.5142857142857142, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>C\", :blood=>0.0, :set1=>0.5806451612903226, :set2=>0.0, :set3=>0.0, :set12=>0.6341463414634146, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.014705882352941176, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.0, :set31=>0.41935483870967744}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.6666666666666666, :set2=>0.0, :set3=>0.0, :set12=>0.5, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.532258064516129, :set2=>0.0, :set3=>0.0, :set12=>0.5227272727272727, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.5652173913043478, :set2=>0.0, :set3=>0.0, :set12=>0.3870967741935484, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.42857142857142855, :set2=>0.0, :set3=>0.0, :set12=>0.3333333333333333, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>A\", :blood=>0.0, :set1=>0.4888888888888889, :set2=>0.0, :set3=>0.0, :set12=>0.43243243243243246, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>A\", :blood=>0.0, :set1=>0.01818181818181818, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.0, :set31=>0.43478260869565216}, {:mutation=>\"C>A\", :blood=>0.0, :set1=>0.45098039215686275, :set2=>0.03225806451612903, :set3=>0.0, :set12=>0.5882352941176471, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.5172413793103449, :set2=>0.0, :set3=>0.0, :set12=>0.43333333333333335, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>C\", :blood=>0.0, :set1=>0.04878048780487805, :set2=>0.0, :set3=>0.019230769230769232, :set12=>0.6060606060606061, :set21=>0.5662650602409639, :set31=>0.6296296296296297}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.4375, :set2=>0.0, :set3=>0.0, :set12=>0.5, :set21=>0.0, :set31=>0.0}, 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:blood=>0.0, :set1=>0.041666666666666664, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.5476190476190477, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.46938775510204084, :set2=>0.0, :set3=>0.0, :set12=>0.7037037037037037, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.020833333333333332, :set2=>0.6923076923076923, :set3=>0.02702702702702703, :set12=>0.041666666666666664, :set21=>0.42857142857142855, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.5945945945945946, :set2=>0.0, :set3=>0.0, :set12=>0.47058823529411764, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>A\", :blood=>0.0, :set1=>0.5, :set2=>0.0, :set3=>0.0, :set12=>0.5333333333333333, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>C\", :blood=>0.0, :set1=>0.5, :set2=>0.0, :set3=>0.0, :set12=>0.5714285714285714, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.40816326530612246, :set2=>0.0, :set3=>0.0, :set12=>0.45454545454545453, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.48936170212765956, :set2=>0.0, :set3=>0.0, :set12=>0.5172413793103449, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.4489795918367347, :set2=>0.0, :set3=>0.0, :set12=>0.3870967741935484, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.43243243243243246, :set2=>0.0, :set3=>0.0, :set12=>0.5652173913043478, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.5208333333333334, :set2=>0.0, :set3=>0.0, :set12=>0.4444444444444444, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.5714285714285714, :set2=>0.0, :set3=>0.0, :set12=>0.47058823529411764, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.5897435897435898, :set2=>0.0, :set3=>0.0, :set12=>0.391304347826087, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.6756756756756757, :set2=>0.0, :set3=>0.0, :set12=>0.42857142857142855, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>T\", :blood=>0.0, :set1=>0.4444444444444444, :set2=>0.0, :set3=>0.0, :set12=>0.5806451612903226, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>A\", :blood=>0.0, :set1=>0.15789473684210525, :set2=>0.0, :set3=>0.0, :set12=>0.38461538461538464, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>T\", :blood=>0.0, :set1=>0.6666666666666666, :set2=>0.0, :set3=>0.0, :set12=>0.46875, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>A\", :blood=>0.0, :set1=>0.6170212765957447, :set2=>0.0, :set3=>0.0, :set12=>0.48, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>T\", :blood=>0.0, :set1=>0.02040816326530612, :set2=>0.0, :set3=>0.0, :set12=>0.6071428571428571, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.5555555555555556, :set2=>0.0, :set3=>0.0, :set12=>0.4482758620689655, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>C\", :blood=>0.0, :set1=>0.017857142857142856, :set2=>0.0, :set3=>0.5102040816326531, :set12=>0.0, :set21=>0.0, :set31=>0.5405405405405406}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.6326530612244898, :set2=>0.0, :set3=>0.0, :set12=>0.4166666666666667, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.5666666666666667, :set2=>0.0, :set3=>0.0, :set12=>0.59375, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.5128205128205128, :set2=>0.0, :set3=>0.0, :set12=>0.6538461538461539, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.5, :set2=>0.0, :set3=>0.0, :set12=>0.5384615384615384, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>C\", :blood=>0.0, :set1=>0.047619047619047616, :set2=>0.0, :set3=>0.027777777777777776, :set12=>0.640625, :set21=>0.4915254237288136, :set31=>0.4857142857142857}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.5370370370370371, :set2=>0.0, :set3=>0.0, :set12=>0.42857142857142855, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.023255813953488372, :set2=>0.0, :set3=>0.0, :set12=>0.6428571428571429, :set21=>0.5824175824175825, :set31=>0.625}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.4883720930232558, :set2=>0.0, :set3=>0.0, :set12=>0.34375, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.675, :set2=>0.0, :set3=>0.0, :set12=>0.4642857142857143, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.5, :set2=>0.0, :set3=>0.0, :set12=>0.5333333333333333, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>C\", :blood=>0.0, :set1=>0.44642857142857145, :set2=>0.0, :set3=>0.0, :set12=>0.6818181818181818, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>A\", :blood=>0.0, :set1=>0.46, :set2=>0.0, :set3=>0.0, :set12=>0.46153846153846156, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.46153846153846156, :set2=>0.0, :set3=>0.0, :set12=>0.72, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.5, :set2=>0.0, :set3=>0.0, :set12=>0.47058823529411764, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>G\", :blood=>0.0, :set1=>0.017857142857142856, :set2=>0.024390243902439025, :set3=>0.023809523809523808, :set12=>0.0, :set21=>0.0, :set31=>0.76}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.5, :set2=>0.0, :set3=>0.0, :set12=>0.5, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.509090909090909, :set2=>0.0, :set3=>0.0, :set12=>0.5, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.017857142857142856, :set2=>0.3888888888888889, :set3=>0.0, :set12=>0.0, :set21=>0.6666666666666666, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.4594594594594595, :set2=>0.0, :set3=>0.0, :set12=>0.45, :set21=>0.0, :set31=>0.03125}, {:mutation=>\"G>T\", :blood=>0.0, :set1=>0.021739130434782608, :set2=>0.0, :set3=>0.02631578947368421, :set12=>0.3103448275862069, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.047619047619047616, :set2=>0.0, :set3=>0.023809523809523808, :set12=>0.759493670886076, :set21=>0.5841584158415841, :set31=>0.47126436781609193}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.49206349206349204, :set2=>0.0, :set3=>0.0, :set12=>0.6470588235294118, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.5370370370370371, :set2=>0.0, :set3=>0.0, :set12=>0.4857142857142857, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.5882352941176471, :set2=>0.0, :set3=>0.0, :set12=>0.3055555555555556, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>T\", :blood=>0.0, :set1=>0.4716981132075472, :set2=>0.0, :set3=>0.014492753623188406, :set12=>0.3142857142857143, :set21=>0.0, :set31=>0.0}]>"
]
},
"execution_count": 12,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"df.filter! {|row| row[:set1] != 0.0}\n",
"df"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"Next prepare instance of Nyaplot::Plot as usual. Nyaplot::Plot.filter is a method for adding 'filter box' to the plot."
]
},
{
"cell_type": "code",
"execution_count": 13,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"\n",
"\n"
],
"text/plain": [
"#[#:bar, :options=>{:value=>:mutation}, :data=>\"7dc53792-6d5a-4607-ad6d-6937a0567124\"}, @xrange=[\"G>A\", \"C>T\", \"A>C\", \"T>A\", \"A>G\", \"T>C\", \"C>A\", \"A>T\", \"T>G\", \"G>T\", \"G>C\", \"C>G\"], @yrange=[0, 452]>], :options=>{:height=>400, :x_label=>\"Mutation types\", :y_label=>\"Frequency\", :yrange=>[0, 100], :width=>700, :xrange=>[\"G>A\", \"C>T\", \"A>C\", \"T>A\", \"A>G\", \"T>C\", \"C>A\", \"A>T\", \"T>G\", \"G>T\", \"G>C\", \"C>G\"]}}>"
]
},
"execution_count": 13,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"plot4=Nyaplot::Plot.new\n",
"plot4.add_with_df(df, :histogram, :set1)\n",
"plot4.configure do\n",
" height(400)\n",
" x_label('PNR')\n",
" y_label('Frequency')\n",
" filter({target:'x'})\n",
" yrange([0,130])\n",
"end\n",
"\n",
"plot5=Nyaplot::Plot.new\n",
"plot5.add_with_df(df, :bar, :mutation)\n",
"plot5.configure do\n",
" height(400)\n",
" x_label('Mutation types')\n",
" y_label('Frequency')\n",
" yrange([0,100])\n",
"end"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"Then create an instance of Nyaplot::Frame. It can hold multiple plots in it, and it helps them to interact with each other."
]
},
{
"cell_type": "code",
"execution_count": 14,
"metadata": {
"collapsed": false
},
"outputs": [
{
"data": {
"text/html": [
"\n",
"\n"
],
"text/plain": [
"#[#[#:histogram, :options=>{:value=>:set1}, :data=>\"7dc53792-6d5a-4607-ad6d-6937a0567124\"}, @xrange=[0, 0.6956521739130435], @yrange=[0, 452]>], :options=>{:height=>400, :x_label=>\"PNR\", :y_label=>\"Frequency\", :yrange=>[0, 130], :width=>700, :xrange=>[0, 0.6956521739130435]}, :filter=>{:target=>\"x\"}}>, #[#:bar, :options=>{:value=>:mutation}, :data=>\"7dc53792-6d5a-4607-ad6d-6937a0567124\"}, @xrange=[\"G>A\", \"C>T\", \"A>C\", \"T>A\", \"A>G\", \"T>C\", \"C>A\", \"A>T\", \"T>G\", \"G>T\", \"G>C\", \"C>G\"], @yrange=[0, 452]>], :options=>{:height=>400, :x_label=>\"Mutation types\", :y_label=>\"Frequency\", :yrange=>[0, 100], :width=>700, :xrange=>[\"G>A\", \"C>T\", \"A>C\", \"T>A\", \"A>G\", \"T>C\", \"C>A\", \"A>T\", \"T>G\", \"G>T\", \"G>C\", \"C>G\"]}}>], :data=>{\"7dc53792-6d5a-4607-ad6d-6937a0567124\"=>#\"G>A\", :blood=>0.0, :set1=>0.019230769230769232, :set2=>0.0, :set3=>0.48214285714285715, :set12=>0.0, :set21=>0.0, :set31=>0.4782608695652174}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.42592592592592593, :set2=>0.0, :set3=>0.0, :set12=>0.375, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>C\", :blood=>0.0, :set1=>0.6153846153846154, :set2=>0.0, :set3=>0.0, :set12=>0.5925925925925926, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>A\", :blood=>0.0, :set1=>0.525, :set2=>0.0, :set3=>0.0, :set12=>0.5277777777777778, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.42857142857142855, :set2=>0.0, :set3=>0.0, :set12=>0.6666666666666666, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.45652173913043476, :set2=>0.0, :set3=>0.0, :set12=>0.43478260869565216, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.09803921568627451, :set2=>0.0, :set3=>0.0, :set12=>0.37142857142857144, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>A\", :blood=>0.0, :set1=>0.5769230769230769, :set2=>0.0, :set3=>0.0, :set12=>0.4782608695652174, :set21=>0.0, :set31=>0.0}, {:mutation=>\"A>G\", :blood=>0.0, :set1=>0.43859649122807015, :set2=>0.0, :set3=>0.0, :set12=>0.5142857142857142, :set21=>0.0, :set31=>0.0}, {:mutation=>\"T>C\", :blood=>0.0, :set1=>0.5806451612903226, :set2=>0.0, :set3=>0.0, :set12=>0.6341463414634146, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.014705882352941176, :set2=>0.0, :set3=>0.0, :set12=>0.0, :set21=>0.0, :set31=>0.41935483870967744}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.6666666666666666, :set2=>0.0, :set3=>0.0, :set12=>0.5, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>T\", :blood=>0.0, :set1=>0.532258064516129, :set2=>0.0, :set3=>0.0, :set12=>0.5227272727272727, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.5652173913043478, :set2=>0.0, :set3=>0.0, :set12=>0.3870967741935484, :set21=>0.0, :set31=>0.0}, {:mutation=>\"G>A\", :blood=>0.0, :set1=>0.42857142857142855, :set2=>0.0, :set3=>0.0, :set12=>0.3333333333333333, :set21=>0.0, :set31=>0.0}, {:mutation=>\"C>A\", :blood=>0.0, :set1=>0.4888888888888889, :set2=>0.0, :set3=>0.0, 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]
},
"execution_count": 14,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"frame = Nyaplot::Frame.new\n",
"frame.add(plot4)\n",
"frame.add(plot5)\n",
"frame.show"
]
}
],
"metadata": {
"kernelspec": {
"display_name": "Ruby",
"language": "ruby",
"name": "ruby"
},
"language_info": {
"name": "ruby",
"version": "2.1.2"
}
},
"nbformat": 4,
"nbformat_minor": 0
}