{"id":5123,"date":"2017-03-03T17:49:44","date_gmt":"2017-03-03T22:49:44","guid":{"rendered":"https:\/\/rud.is\/b\/?p=5123"},"modified":"2018-03-10T07:54:27","modified_gmt":"2018-03-10T12:54:27","slug":"candy-coated-confidence-intervals","status":"publish","type":"post","link":"https:\/\/rud.is\/b\/2017\/03\/03\/candy-coated-confidence-intervals\/","title":{"rendered":"Candy Coated Confidence Intervals"},"content":{"rendered":"<p>@mrshrbrmstr hinted that she would like <a href=\"https:\/\/blogs.sas.com\/content\/iml\/2017\/02\/20\/proportion-of-colors-mandms.html\">this post by @RickWicklin<\/a> translated into R for her stats class. She&#8217;s quite capable of cranking out the translation of the core component of that post \u2014 a call to <code>chisq.test<\/code> \u2014 but she wanted to show the entire post (in R) and really didn&#8217;t have time (she&#8217;s teaching a full load of classes and is department chair + a mom). I suggested that I, too, was a bit short on time which resulted in her putting out a call to the twitterverse for assistance which ultimately ended up coercing me into tackling the problem.<\/p>\n<p>I won&#8217;t re-create Rick&#8217;s post or my riff of it here since you can <a href=\"http:\/\/rpubs.com\/hrbrmstr\/mms\">check out the RPubs page<\/a> for it and also <a href=\"https:\/\/gist.github.com\/hrbrmstr\/b088f26e71e8d88c0cc499b0f0a21344\">get the source<\/a> (you can get the source from the Rmd, too, but some folks like gists better).<\/p>\n<p>So, why a blog post if not to present the translation?<\/p>\n<p>Two reasons: I needed tidy Goodman simultaneous confidence intervals (SCIs) and Rick&#8217;s final plot was just <em>begging<\/em> to have &#8220;real&#8221; M&amp;M&#8217;s as the point &#8220;geom&#8221;.<\/p>\n<h3>S[c]imple &amp; Tidy SCIs<\/h3>\n<p>We&#8217;ve got options for calculating simultaneous CIs in R and I could have just used <code>DescTools::MultinomCI<\/code> except that I wanted a <code>tibble<\/code> and it returns a matrix plus it only has three of the more common methods implemented (yes, I am the ultimate package snob). I recalled that the <code>CoinMinD<\/code> package was tailor made for working with SCIs and has many more methods implemented, but the output is actually only that: <strong><code>print()<\/code>ed to console output<\/strong>.<\/p>\n<p>Yes, I shouted in disbelief at the glowing rectangle in front of me when I noticed that almost as loudly as you did when you read that sentence.<\/p>\n<p>The algorithms implemented in <code>CoinMinD<\/code> are just dandy and the package is coming up on it&#8217;s 4th birthday. So, as a present from it (via me) to the R community, I whipped together <a href=\"https:\/\/github.com\/hrbrmstr\/scimple\"><code>scimple<\/code><\/a> which generates tidy tibbles and has a function <code>scimple_ci()<\/code> which is similar to <code>binom::binom.confint()<\/code> in that it will generate the SCIs for all the available (non-Bayesian) methods, including Goodman.<\/p>\n<p>Kick the tyres (pls!) and drop issues and\/or PRs as you see fit.<\/p>\n<h3>You can&#8217;t plot just one<\/h3>\n<p>Rick&#8217;s post analyzes distributions of M&amp;M&#8217;s so I went to the <a href=\"http:\/\/www.mms.com\/\">official M&amp;M&#8217;s site<\/a> to grab the official colors for the ones in his data set. I casually went about making the rest of the post with standard points with a superimposed white &#8220;m&#8221; when it dawned on me that the M&amp;M&#8217;s site used those lentils (yes, it seems the candies are called lentils, or at least their icons are) were <em>all over<\/em> the site. After some site spelunking with Chrome Developer Tools I had the URLs for the candies in question and managed to use the nascent <code>ggimage::geom_image()<\/code> to place them on the plot:<\/p>\n<p><img data-recalc-dims=\"1\" loading=\"lazy\" decoding=\"async\" data-attachment-id=\"5124\" data-permalink=\"https:\/\/rud.is\/b\/2017\/03\/03\/candy-coated-confidence-intervals\/cleveland-1\/\" data-orig-file=\"https:\/\/i0.wp.com\/rud.is\/b\/wp-content\/uploads\/2017\/03\/cleveland-1.png?fit=1824%2C1920&amp;ssl=1\" data-orig-size=\"1824,1920\" data-comments-opened=\"1\" data-image-meta=\"{&quot;aperture&quot;:&quot;0&quot;,&quot;credit&quot;:&quot;&quot;,&quot;camera&quot;:&quot;&quot;,&quot;caption&quot;:&quot;&quot;,&quot;created_timestamp&quot;:&quot;0&quot;,&quot;copyright&quot;:&quot;&quot;,&quot;focal_length&quot;:&quot;0&quot;,&quot;iso&quot;:&quot;0&quot;,&quot;shutter_speed&quot;:&quot;0&quot;,&quot;title&quot;:&quot;&quot;,&quot;orientation&quot;:&quot;0&quot;}\" data-image-title=\"cleveland-1\" data-image-description=\"\" data-image-caption=\"\" data-large-file=\"https:\/\/i0.wp.com\/rud.is\/b\/wp-content\/uploads\/2017\/03\/cleveland-1.png?fit=510%2C537&amp;ssl=1\" src=\"https:\/\/i0.wp.com\/rud.is\/b\/wp-content\/uploads\/2017\/03\/cleveland-1.png?resize=510%2C537&#038;ssl=1\" alt=\"\" width=\"510\" height=\"537\" class=\"aligncenter size-full wp-image-5124\" \/><\/p>\n<p>The plot is a bit sparse as you have to get the aspect ratio <em>just right<\/em> to keep those tasty, tiny circles as circles.<\/p>\n<p>The new <code>geom_image()<\/code> opens up many new possibilities for R visualizations (and not all are good possibilities). I think @mrshrbrmstr&#8217;s students got a kick out of a stats-y plot having real M&amp;M&#8217;s on it so it worked OK this time. Just be wary of using gratuitous imagery and overdoing your watermarking.<\/p>\n<p>As stated earlier you can <a href=\"https:\/\/gist.github.com\/hrbrmstr\/b088f26e71e8d88c0cc499b0f0a21344\">get the code<\/a> and see how you can improve upon Rick&#8217;s original post and my attempt at a quick riff. If you do end up cranking something out, drop a comment here or a tweet (@hrbrmstr) to show off your creation(s)!<\/p>\n","protected":false},"excerpt":{"rendered":"<p>@mrshrbrmstr hinted that she would like this post by @RickWicklin translated into R for her stats class. She&#8217;s quite capable of cranking out the translation of the core component of that post \u2014 a call to chisq.test \u2014 but she wanted to show the entire post (in R) and really didn&#8217;t have time (she&#8217;s teaching [&hellip;]<\/p>\n","protected":false},"author":1,"featured_media":5124,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":true,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"activitypub_content_warning":"","activitypub_content_visibility":"","activitypub_max_image_attachments":3,"activitypub_interaction_policy_quote":"anyone","activitypub_status":"","footnotes":""},"categories":[753,91],"tags":[810],"class_list":["post-5123","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-ggplot","category-r","tag-post"],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v27.3 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>Candy Coated Confidence Intervals - rud.is<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/rud.is\/b\/2017\/03\/03\/candy-coated-confidence-intervals\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Candy Coated Confidence Intervals - rud.is\" \/>\n<meta property=\"og:description\" content=\"@mrshrbrmstr hinted that she would like this post by @RickWicklin translated into R for her stats class. 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