Skip to content

Commit

Permalink
too many updates
Browse files Browse the repository at this point in the history
  • Loading branch information
bbolker committed Oct 3, 2023
1 parent 011bc27 commit d0ee116
Show file tree
Hide file tree
Showing 17 changed files with 2,771 additions and 907 deletions.
307 changes: 240 additions & 67 deletions docs/admin/assignments.html
Original file line number Diff line number Diff line change
Expand Up @@ -6,74 +6,229 @@
<meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes" />
<title>Assignments</title>
<style>
code{white-space: pre-wrap;}
span.smallcaps{font-variant: small-caps;}
span.underline{text-decoration: underline;}
div.column{display: inline-block; vertical-align: top; width: 50%;}
</style>
<style>
a.sourceLine { display: inline-block; line-height: 1.25; }
a.sourceLine { pointer-events: none; color: inherit; text-decoration: inherit; }
a.sourceLine:empty { height: 1.2em; }
html {
color: #1a1a1a;
background-color: #fdfdfd;
}
body {
margin: 0 auto;
max-width: 36em;
padding-left: 50px;
padding-right: 50px;
padding-top: 50px;
padding-bottom: 50px;
hyphens: auto;
overflow-wrap: break-word;
text-rendering: optimizeLegibility;
font-kerning: normal;
}
@media (max-width: 600px) {
body {
font-size: 0.9em;
padding: 12px;
}
h1 {
font-size: 1.8em;
}
}
@media print {
html {
background-color: white;
}
body {
background-color: transparent;
color: black;
font-size: 12pt;
}
p, h2, h3 {
orphans: 3;
widows: 3;
}
h2, h3, h4 {
page-break-after: avoid;
}
}
p {
margin: 1em 0;
}
a {
color: #1a1a1a;
}
a:visited {
color: #1a1a1a;
}
img {
max-width: 100%;
}
svg {
height: auto;
max-width: 100%;
}
h1, h2, h3, h4, h5, h6 {
margin-top: 1.4em;
}
h5, h6 {
font-size: 1em;
font-style: italic;
}
h6 {
font-weight: normal;
}
ol, ul {
padding-left: 1.7em;
margin-top: 1em;
}
li > ol, li > ul {
margin-top: 0;
}
blockquote {
margin: 1em 0 1em 1.7em;
padding-left: 1em;
border-left: 2px solid #e6e6e6;
color: #606060;
}
code {
font-family: Menlo, Monaco, Consolas, 'Lucida Console', monospace;
font-size: 85%;
margin: 0;
hyphens: manual;
}
pre {
margin: 1em 0;
overflow: auto;
}
pre code {
padding: 0;
overflow: visible;
overflow-wrap: normal;
}
.sourceCode {
background-color: transparent;
overflow: visible;
}
hr {
background-color: #1a1a1a;
border: none;
height: 1px;
margin: 1em 0;
}
table {
margin: 1em 0;
border-collapse: collapse;
width: 100%;
overflow-x: auto;
display: block;
font-variant-numeric: lining-nums tabular-nums;
}
table caption {
margin-bottom: 0.75em;
}
tbody {
margin-top: 0.5em;
border-top: 1px solid #1a1a1a;
border-bottom: 1px solid #1a1a1a;
}
th {
border-top: 1px solid #1a1a1a;
padding: 0.25em 0.5em 0.25em 0.5em;
}
td {
padding: 0.125em 0.5em 0.25em 0.5em;
}
header {
margin-bottom: 4em;
text-align: center;
}
#TOC li {
list-style: none;
}
#TOC ul {
padding-left: 1.3em;
}
#TOC > ul {
padding-left: 0;
}
#TOC a:not(:hover) {
text-decoration: none;
}
code{white-space: pre-wrap;}
span.smallcaps{font-variant: small-caps;}
div.columns{display: flex; gap: min(4vw, 1.5em);}
div.column{flex: auto; overflow-x: auto;}
div.hanging-indent{margin-left: 1.5em; text-indent: -1.5em;}

ul.task-list[class]{list-style: none;}
ul.task-list li input[type="checkbox"] {
font-size: inherit;
width: 0.8em;
margin: 0 0.8em 0.2em -1.6em;
vertical-align: middle;
}

pre > code.sourceCode { white-space: pre; position: relative; }
pre > code.sourceCode > span { line-height: 1.25; }
pre > code.sourceCode > span:empty { height: 1.2em; }
.sourceCode { overflow: visible; }
code.sourceCode { white-space: pre; position: relative; }
code.sourceCode > span { color: inherit; text-decoration: inherit; }
div.sourceCode { margin: 1em 0; }
pre.sourceCode { margin: 0; }
@media screen {
div.sourceCode { overflow: auto; }
}
@media print {
code.sourceCode { white-space: pre-wrap; }
a.sourceLine { text-indent: -1em; padding-left: 1em; }
}
pre.numberSource a.sourceLine
{ position: relative; left: -4em; }
pre.numberSource a.sourceLine::before
{ content: attr(title);
position: relative; left: -1em; text-align: right; vertical-align: baseline;
border: none; pointer-events: all; display: inline-block;
-webkit-touch-callout: none; -webkit-user-select: none;
-khtml-user-select: none; -moz-user-select: none;
-ms-user-select: none; user-select: none;
padding: 0 4px; width: 4em;
color: #aaaaaa;
}
pre.numberSource { margin-left: 3em; border-left: 1px solid #aaaaaa; padding-left: 4px; }
pre > code.sourceCode { white-space: pre-wrap; }
pre > code.sourceCode > span { text-indent: -5em; padding-left: 5em; }
}
pre.numberSource code
{ counter-reset: source-line 0; }
pre.numberSource code > span
{ position: relative; left: -4em; counter-increment: source-line; }
pre.numberSource code > span > a:first-child::before
{ content: counter(source-line);
position: relative; left: -1em; text-align: right; vertical-align: baseline;
border: none; display: inline-block;
-webkit-touch-callout: none; -webkit-user-select: none;
-khtml-user-select: none; -moz-user-select: none;
-ms-user-select: none; user-select: none;
padding: 0 4px; width: 4em;
color: #aaaaaa;
}
pre.numberSource { margin-left: 3em; border-left: 1px solid #aaaaaa; padding-left: 4px; }
div.sourceCode
{ }
{ }
@media screen {
a.sourceLine::before { text-decoration: underline; }
}
code span.al { color: #ff0000; font-weight: bold; } /* Alert */
code span.an { color: #60a0b0; font-weight: bold; font-style: italic; } /* Annotation */
code span.at { color: #7d9029; } /* Attribute */
code span.bn { color: #40a070; } /* BaseN */
code span.bu { } /* BuiltIn */
code span.cf { color: #007020; font-weight: bold; } /* ControlFlow */
code span.ch { color: #4070a0; } /* Char */
code span.cn { color: #880000; } /* Constant */
code span.co { color: #60a0b0; font-style: italic; } /* Comment */
code span.cv { color: #60a0b0; font-weight: bold; font-style: italic; } /* CommentVar */
code span.do { color: #ba2121; font-style: italic; } /* Documentation */
code span.dt { color: #902000; } /* DataType */
code span.dv { color: #40a070; } /* DecVal */
code span.er { color: #ff0000; font-weight: bold; } /* Error */
code span.ex { } /* Extension */
code span.fl { color: #40a070; } /* Float */
code span.fu { color: #06287e; } /* Function */
code span.im { } /* Import */
code span.in { color: #60a0b0; font-weight: bold; font-style: italic; } /* Information */
code span.kw { color: #007020; font-weight: bold; } /* Keyword */
code span.op { color: #666666; } /* Operator */
code span.ot { color: #007020; } /* Other */
code span.pp { color: #bc7a00; } /* Preprocessor */
code span.sc { color: #4070a0; } /* SpecialChar */
code span.ss { color: #bb6688; } /* SpecialString */
code span.st { color: #4070a0; } /* String */
code span.va { color: #19177c; } /* Variable */
code span.vs { color: #4070a0; } /* VerbatimString */
code span.wa { color: #60a0b0; font-weight: bold; font-style: italic; } /* Warning */
</style>
pre > code.sourceCode > span > a:first-child::before { text-decoration: underline; }
}
code span.al { color: #ff0000; font-weight: bold; }
code span.an { color: #60a0b0; font-weight: bold; font-style: italic; }
code span.at { color: #7d9029; }
code span.bn { color: #40a070; }
code span.bu { color: #008000; }
code span.cf { color: #007020; font-weight: bold; }
code span.ch { color: #4070a0; }
code span.cn { color: #880000; }
code span.co { color: #60a0b0; font-style: italic; }
code span.cv { color: #60a0b0; font-weight: bold; font-style: italic; }
code span.do { color: #ba2121; font-style: italic; }
code span.dt { color: #902000; }
code span.dv { color: #40a070; }
code span.er { color: #ff0000; font-weight: bold; }
code span.ex { }
code span.fl { color: #40a070; }
code span.fu { color: #06287e; }
code span.im { color: #008000; font-weight: bold; }
code span.in { color: #60a0b0; font-weight: bold; font-style: italic; }
code span.kw { color: #007020; font-weight: bold; }
code span.op { color: #666666; }
code span.ot { color: #007020; }
code span.pp { color: #bc7a00; }
code span.sc { color: #4070a0; }
code span.ss { color: #bb6688; }
code span.st { color: #4070a0; }
code span.va { color: #19177c; }
code span.vs { color: #4070a0; }
code span.wa { color: #60a0b0; font-weight: bold; font-style: italic; }
</style>
<!--[if lt IE 9]>
<script src="//cdnjs.cloudflare.com/ajax/libs/html5shiv/3.7.3/html5shiv-printshiv.min.js"></script>
<![endif]-->
Expand All @@ -89,20 +244,36 @@ <h1 class="title">
</div>
</div>
</header>

<header id="title-block-header">
<h1 class="title">Assignments</h1>
</header>
<p><a href="assignments/projects.html">Project information</a></p>
<h2 id="general">General</h2>
<p>For the first few weeks of the course, there will be a short assignment every week. You are advised to start on these on Monday (whether we’ve said exactly what the assignment is by then or not). We will typically work on them or talk about them in class during the week. They are technically due Friday at noon. This is to encourage you to finish quickly if you can, and move on with your life, not to give you pressure.</p>
<p>If your assignment will be late, please email us (<code>bio708qmee@gmail.com</code>) by Friday noon to let us know when you will hand it in. This should be before 2PM on Monday, unless we give permission for special circumstances.</p>
<p>For the first few weeks of the course, there will be a short
assignment every week. You are advised to start on these on ??? (whether
we’ve said exactly what the assignment is by then or not). We will
typically work on them or talk about them in class during the week. They
are technically due ???. This is to encourage you to finish quickly if
you can, and move on with your life, not to give you pressure.</p>
<p>If your assignment will be late, please email us
(<code>bio708qmee@gmail.com</code>) by ??? to let us know when you will
hand it in. This should be before ???, unless we give permission for
special circumstances.</p>
<ul>
<li>The actual content of your assignment should be posted to your GitHub repo</li>
<li><p>Submit your assignment (i.e. tell us you have finished) <strong>by email</strong> to <a href="mailto:bio708qmee@gmail.com">bio708qmee@gmail.com</a>. Your assignment is not done until you do this. To submit an assignment:</p></li>
<li>Tell us the main file we should be looking at, including the <em>relative path</em> from the main repo directory, e.g, <code>dushoff/add.R</code> Other files that are relevant can simply be mentioned in the script:</li>
<li><p>The actual content of your assignment should be posted to your
GitHub repo</p></li>
<li><p>Submit your assignment (i.e. tell us you have finished)
<strong>by email</strong> to <a href="mailto:bio708qmee@gmail.com">bio708qmee@gmail.com</a>. Your
assignment is not done until you do this. To submit an
assignment:</p></li>
<li><p>Tell us the main file we should be looking at, including the
<em>relative path</em> from the main repo directory, e.g,
<code>dushoff/add.R</code> Other files that are relevant can simply be
mentioned in the script, e.g.:</p></li>
</ul>
<div class="sourceCode" id="cb1"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb1-1" title="1"><span class="kw">read.csv</span>(<span class="st">&quot;eggplant_survey.csv&quot;</span>)</a>
<a class="sourceLine" id="cb1-2" title="2"><span class="co">## Plot the histotypes (see README.md)</span></a></code></pre></div>
<div class="sourceCode" id="cb1"><pre class="sourceCode r"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="fu">read.csv</span>(<span class="st">&quot;eggplant_survey.csv&quot;</span>)</span>
<span id="cb1-2"><a href="#cb1-2" aria-hidden="true" tabindex="-1"></a><span class="do">## Plot the histotypes (see README.md)</span></span></code></pre></div>
<p>For lots of opinions and thoughts on R coding style, see <a href="R_style.html">here</a></p>
<h2 id="weights-and-rubrics">Weights and rubrics</h2>
<ul>
Expand All @@ -119,7 +290,9 @@ <h2 id="weights-and-rubrics">Weights and rubrics</h2>
<li>assignments 45%</li>
<li>first draft of project 15%</li>
<li>in-class presentation of final project 15%</li>
<li>written final project 15% (you will get feedback and have a chance to make improvements between the presentation and the final submission of the written project)</li>
<li>written final project 15% (you will get feedback and have a chance
to make improvements between the presentation and the final submission
of the written project)</li>
</ul></li>
</ul>
<div id="footer">
Expand Down
Binary file modified docs/data/CA_homicide.rds
Binary file not shown.
227 changes: 131 additions & 96 deletions docs/lectures/Bayesian_example.notes.html

Large diffs are not rendered by default.

356 changes: 175 additions & 181 deletions docs/lectures/Bayesian_overview.notes.html

Large diffs are not rendered by default.

388 changes: 186 additions & 202 deletions docs/lectures/CA_homicide.notes.html

Large diffs are not rendered by default.

Loading

0 comments on commit d0ee116

Please sign in to comment.