Skip to content

Commit e3ca938

Browse files
committed
Autobuild
1 parent c0d4b6a commit e3ca938

22 files changed

Lines changed: 670 additions & 626 deletions

docs/exercises/answers/Exercise2_answers.html

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -12,7 +12,7 @@
1212
<meta name="author" content="Rockefeller University, Bioinformatics Resource Centre" />
1313

1414

15-
<title>Exercise 1</title>
15+
<title>Exercise 2</title>
1616

1717
<script>// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
1818
// be compatible with the behavior of Pandoc < 2.8).
@@ -427,7 +427,7 @@
427427

428428

429429

430-
<h1 class="title toc-ignore">Exercise 1</h1>
430+
<h1 class="title toc-ignore">Exercise 2</h1>
431431
<h4 class="author">Rockefeller University, Bioinformatics Resource
432432
Centre</h4>
433433
<h4 class="date"><a href="https://rockefelleruniversity.github.io/Intro_To_Python/" class="uri">https://rockefelleruniversity.github.io/Intro_To_Python/</a></h4>
@@ -645,7 +645,7 @@ <h4 class="date"><a href="https://rockefelleruniversity.github.io/Intro_To_Pytho
645645
between the two?</li>
646646
</ul>
647647
<div class="sourceCode" id="cb48"><pre class="sourceCode python"><code class="sourceCode python"><span id="cb48-1"><a href="#cb48-1" tabindex="-1"></a>my_set1.intersection(my_set2) </span></code></pre></div>
648-
<pre><code>## {&#39;GSS&#39;, &#39;MCM10&#39;, &#39;PKM&#39;}</code></pre>
648+
<pre><code>## {&#39;MCM10&#39;, &#39;PKM&#39;, &#39;GSS&#39;}</code></pre>
649649

650650

651651

docs/exercises/answers/Exercise3_answers.html

Lines changed: 2 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -12,7 +12,7 @@
1212
<meta name="author" content="Rockefeller University, Bioinformatics Resource Centre" />
1313

1414

15-
<title>Exercise 2</title>
15+
<title>Exercise 3</title>
1616

1717
<script>// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
1818
// be compatible with the behavior of Pandoc < 2.8).
@@ -427,7 +427,7 @@
427427

428428

429429

430-
<h1 class="title toc-ignore">Exercise 2</h1>
430+
<h1 class="title toc-ignore">Exercise 3</h1>
431431
<h4 class="author">Rockefeller University, Bioinformatics Resource
432432
Centre</h4>
433433
<h4 class="date"><a href="https://rockefelleruniversity.github.io/Intro_To_Python/" class="uri">https://rockefelleruniversity.github.io/Intro_To_Python/</a></h4>

docs/exercises/exercises/Exercise2_exercise.html

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -12,7 +12,7 @@
1212
<meta name="author" content="Rockefeller University, Bioinformatics Resource Centre" />
1313

1414

15-
<title>Exercise 1</title>
15+
<title>Exercise 2</title>
1616

1717
<script>// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
1818
// be compatible with the behavior of Pandoc < 2.8).
@@ -326,7 +326,7 @@
326326

327327

328328

329-
<h1 class="title toc-ignore">Exercise 1</h1>
329+
<h1 class="title toc-ignore">Exercise 2</h1>
330330
<h4 class="author">Rockefeller University, Bioinformatics Resource
331331
Centre</h4>
332332
<h4 class="date"><a href="https://rockefelleruniversity.github.io/Intro_To_Python/" class="uri">https://rockefelleruniversity.github.io/Intro_To_Python/</a></h4>
@@ -480,7 +480,7 @@ <h4 class="date"><a href="https://rockefelleruniversity.github.io/Intro_To_Pytho
480480
<li>These are genes of interest from two experiments. What genes overlap
481481
between the two?</li>
482482
</ul>
483-
<pre><code>## {&#39;GSS&#39;, &#39;MCM10&#39;, &#39;PKM&#39;}</code></pre>
483+
<pre><code>## {&#39;MCM10&#39;, &#39;PKM&#39;, &#39;GSS&#39;}</code></pre>
484484

485485

486486

docs/exercises/exercises/Exercise3_exercise.html

Lines changed: 2 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -12,7 +12,7 @@
1212
<meta name="author" content="Rockefeller University, Bioinformatics Resource Centre" />
1313

1414

15-
<title>Exercise 2</title>
15+
<title>Exercise 3</title>
1616

1717
<script>// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
1818
// be compatible with the behavior of Pandoc < 2.8).
@@ -326,7 +326,7 @@
326326

327327

328328

329-
<h1 class="title toc-ignore">Exercise 2</h1>
329+
<h1 class="title toc-ignore">Exercise 3</h1>
330330
<h4 class="author">Rockefeller University, Bioinformatics Resource
331331
Centre</h4>
332332
<h4 class="date"><a href="https://rockefelleruniversity.github.io/Intro_To_Python/" class="uri">https://rockefelleruniversity.github.io/Intro_To_Python/</a></h4>

docs/presentations/r_code/Session1.R

Lines changed: 2 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -272,6 +272,8 @@ if(params$isSlides == "yes"){
272272

273273
## my_strs.index('c')
274274

275+
## my_strs.append("f")
276+
275277
## my_list = [1,4,9,4,11,12,6]
276278
## my_list.sort()
277279
## my_list

docs/presentations/singlepage/Session1.html

Lines changed: 254 additions & 246 deletions
Large diffs are not rendered by default.

docs/presentations/singlepage/Session2.html

Lines changed: 24 additions & 24 deletions
Original file line numberDiff line numberDiff line change
@@ -1634,111 +1634,111 @@ <h2>Reading/writing files</h2>
16341634
Gene_a
16351635
</td>
16361636
<td style="text-align:right;">
1637-
5.942751
1637+
3.043406
16381638
</td>
16391639
<td style="text-align:right;">
1640-
4.520504
1640+
3.221989
16411641
</td>
16421642
<td style="text-align:right;">
1643-
3.546316
1643+
2.877801
16441644
</td>
16451645
</tr>
16461646
<tr>
16471647
<td style="text-align:left;">
16481648
Gene_b
16491649
</td>
16501650
<td style="text-align:right;">
1651-
4.198791
1651+
3.010303
16521652
</td>
16531653
<td style="text-align:right;">
1654-
4.840674
1654+
4.254676
16551655
</td>
16561656
<td style="text-align:right;">
1657-
5.584670
1657+
5.176635
16581658
</td>
16591659
</tr>
16601660
<tr>
16611661
<td style="text-align:left;">
16621662
Gene_c
16631663
</td>
16641664
<td style="text-align:right;">
1665-
5.745491
1665+
4.081544
16661666
</td>
16671667
<td style="text-align:right;">
1668-
5.376988
1668+
3.185000
16691669
</td>
16701670
<td style="text-align:right;">
1671-
6.034910
1671+
3.462291
16721672
</td>
16731673
</tr>
16741674
<tr>
16751675
<td style="text-align:left;">
16761676
Gene_d
16771677
</td>
16781678
<td style="text-align:right;">
1679-
3.743800
1679+
3.175987
16801680
</td>
16811681
<td style="text-align:right;">
1682-
5.526237
1682+
5.352280
16831683
</td>
16841684
<td style="text-align:right;">
1685-
3.084899
1685+
4.375491
16861686
</td>
16871687
</tr>
16881688
<tr>
16891689
<td style="text-align:left;">
16901690
Gene_e
16911691
</td>
16921692
<td style="text-align:right;">
1693-
11.130448
1693+
10.147706
16941694
</td>
16951695
<td style="text-align:right;">
1696-
11.776156
1696+
10.202798
16971697
</td>
16981698
<td style="text-align:right;">
1699-
11.181107
1699+
9.161134
17001700
</td>
17011701
</tr>
17021702
<tr>
17031703
<td style="text-align:left;">
17041704
Gene_f
17051705
</td>
17061706
<td style="text-align:right;">
1707-
10.072740
1707+
11.345065
17081708
</td>
17091709
<td style="text-align:right;">
1710-
8.282835
1710+
10.205219
17111711
</td>
17121712
<td style="text-align:right;">
1713-
8.793593
1713+
8.325765
17141714
</td>
17151715
</tr>
17161716
<tr>
17171717
<td style="text-align:left;">
17181718
Gene_g
17191719
</td>
17201720
<td style="text-align:right;">
1721-
9.465648
1721+
10.181925
17221722
</td>
17231723
<td style="text-align:right;">
1724-
10.236349
1724+
11.607867
17251725
</td>
17261726
<td style="text-align:right;">
1727-
10.280973
1727+
10.636487
17281728
</td>
17291729
</tr>
17301730
<tr>
17311731
<td style="text-align:left;">
17321732
Gene_h
17331733
</td>
17341734
<td style="text-align:right;">
1735-
11.112976
1735+
10.618259
17361736
</td>
17371737
<td style="text-align:right;">
1738-
9.983206
1738+
12.403991
17391739
</td>
17401740
<td style="text-align:right;">
1741-
10.019706
1741+
9.504224
17421742
</td>
17431743
</tr>
17441744
</tbody>

docs/presentations/singlepage/Session3.html

Lines changed: 1 addition & 1 deletion
Large diffs are not rendered by default.

docs/presentations/slides/Session1.html

Lines changed: 19 additions & 7 deletions
Original file line numberDiff line numberDiff line change
@@ -656,6 +656,8 @@
656656
* they are mutable and dynamic (elements can be modified and length can be changed)
657657
* they can hold mixed types of data
658658

659+
---
660+
659661
## Lists
660662

661663
Lists are denoted with square brackets.
@@ -909,7 +911,7 @@
909911
## ['a', 'b', 'c', 'c', 'd', 'e', 1, 2, 3, 4, 5, 'f', 1]
910912
```
911913

912-
* `.remove()` removes something from the list. It will only remove the first instance though.
914+
* `.remove()` removes something from the list, but will only remove the first instance
913915

914916

915917
``` python
@@ -938,7 +940,6 @@
938940

939941
There are many useful functions built into the base version of python.
940942

941-
942943
* `.index()` reveals which position in the list is the supplied argument
943944

944945

@@ -950,6 +951,17 @@
950951
## 2
951952
```
952953

954+
* `.append()` will append the supplied argument to the list
955+
956+
957+
``` python
958+
my_strs.append("f")
959+
```
960+
961+
---
962+
## Functions and lists
963+
964+
953965
* `.sort()` will sort your list. This works both with numerical and string data.
954966

955967

@@ -1323,7 +1335,7 @@
13231335
```
13241336

13251337
```
1326-
## {'c', 'a', 'b'}
1338+
## {'c', 'b', 'a'}
13271339
```
13281340

13291341
``` python
@@ -1332,7 +1344,7 @@
13321344
```
13331345

13341346
```
1335-
## {'c', 'b', 'a'}
1347+
## {'b', 'c', 'a'}
13361348
```
13371349

13381350
---
@@ -1347,7 +1359,7 @@
13471359
```
13481360

13491361
```
1350-
## {'c', 'd', 'b', 'a'}
1362+
## {'b', 'd', 'c', 'a'}
13511363
```
13521364

13531365

@@ -1357,7 +1369,7 @@
13571369
```
13581370

13591371
```
1360-
## {'c', 'b', 'a'}
1372+
## {'b', 'c', 'a'}
13611373
```
13621374

13631375
---
@@ -1389,7 +1401,7 @@
13891401
```
13901402

13911403
```
1392-
## {'c', 'b', 'a'}
1404+
## {'b', 'c', 'a'}
13931405
```
13941406

13951407
---

docs/presentations/slides/Session2.html

Lines changed: 24 additions & 24 deletions
Original file line numberDiff line numberDiff line change
@@ -92,51 +92,51 @@
9292
&lt;tbody&gt;
9393
&lt;tr&gt;
9494
&lt;td style="text-align:left;"&gt; Gene_a &lt;/td&gt;
95-
&lt;td style="text-align:right;"&gt; 5.691507 &lt;/td&gt;
96-
&lt;td style="text-align:right;"&gt; 3.523566 &lt;/td&gt;
97-
&lt;td style="text-align:right;"&gt; 4.071882 &lt;/td&gt;
95+
&lt;td style="text-align:right;"&gt; 5.650527 &lt;/td&gt;
96+
&lt;td style="text-align:right;"&gt; 4.134974 &lt;/td&gt;
97+
&lt;td style="text-align:right;"&gt; 4.527946 &lt;/td&gt;
9898
&lt;/tr&gt;
9999
&lt;tr&gt;
100100
&lt;td style="text-align:left;"&gt; Gene_b &lt;/td&gt;
101-
&lt;td style="text-align:right;"&gt; 4.830111 &lt;/td&gt;
102-
&lt;td style="text-align:right;"&gt; 3.494096 &lt;/td&gt;
103-
&lt;td style="text-align:right;"&gt; 4.033667 &lt;/td&gt;
101+
&lt;td style="text-align:right;"&gt; 4.581785 &lt;/td&gt;
102+
&lt;td style="text-align:right;"&gt; 5.393524 &lt;/td&gt;
103+
&lt;td style="text-align:right;"&gt; 4.388599 &lt;/td&gt;
104104
&lt;/tr&gt;
105105
&lt;tr&gt;
106106
&lt;td style="text-align:left;"&gt; Gene_c &lt;/td&gt;
107-
&lt;td style="text-align:right;"&gt; 2.854823 &lt;/td&gt;
108-
&lt;td style="text-align:right;"&gt; 4.707699 &lt;/td&gt;
109-
&lt;td style="text-align:right;"&gt; 3.510131 &lt;/td&gt;
107+
&lt;td style="text-align:right;"&gt; 3.592237 &lt;/td&gt;
108+
&lt;td style="text-align:right;"&gt; 3.183371 &lt;/td&gt;
109+
&lt;td style="text-align:right;"&gt; 3.918769 &lt;/td&gt;
110110
&lt;/tr&gt;
111111
&lt;tr&gt;
112112
&lt;td style="text-align:left;"&gt; Gene_d &lt;/td&gt;
113-
&lt;td style="text-align:right;"&gt; 2.855641 &lt;/td&gt;
114-
&lt;td style="text-align:right;"&gt; 6.714510 &lt;/td&gt;
115-
&lt;td style="text-align:right;"&gt; 3.382114 &lt;/td&gt;
113+
&lt;td style="text-align:right;"&gt; 3.994723 &lt;/td&gt;
114+
&lt;td style="text-align:right;"&gt; 4.447086 &lt;/td&gt;
115+
&lt;td style="text-align:right;"&gt; 3.614760 &lt;/td&gt;
116116
&lt;/tr&gt;
117117
&lt;tr&gt;
118118
&lt;td style="text-align:left;"&gt; Gene_e &lt;/td&gt;
119-
&lt;td style="text-align:right;"&gt; 9.264908 &lt;/td&gt;
120-
&lt;td style="text-align:right;"&gt; 9.647429 &lt;/td&gt;
121-
&lt;td style="text-align:right;"&gt; 10.944800 &lt;/td&gt;
119+
&lt;td style="text-align:right;"&gt; 10.779982 &lt;/td&gt;
120+
&lt;td style="text-align:right;"&gt; 9.618680 &lt;/td&gt;
121+
&lt;td style="text-align:right;"&gt; 8.669484 &lt;/td&gt;
122122
&lt;/tr&gt;
123123
&lt;tr&gt;
124124
&lt;td style="text-align:left;"&gt; Gene_f &lt;/td&gt;
125-
&lt;td style="text-align:right;"&gt; 11.052455 &lt;/td&gt;
126-
&lt;td style="text-align:right;"&gt; 8.941522 &lt;/td&gt;
127-
&lt;td style="text-align:right;"&gt; 10.335152 &lt;/td&gt;
125+
&lt;td style="text-align:right;"&gt; 10.521964 &lt;/td&gt;
126+
&lt;td style="text-align:right;"&gt; 9.550138 &lt;/td&gt;
127+
&lt;td style="text-align:right;"&gt; 8.682096 &lt;/td&gt;
128128
&lt;/tr&gt;
129129
&lt;tr&gt;
130130
&lt;td style="text-align:left;"&gt; Gene_g &lt;/td&gt;
131-
&lt;td style="text-align:right;"&gt; 9.701128 &lt;/td&gt;
132-
&lt;td style="text-align:right;"&gt; 10.756115 &lt;/td&gt;
133-
&lt;td style="text-align:right;"&gt; 9.129262 &lt;/td&gt;
131+
&lt;td style="text-align:right;"&gt; 10.328184 &lt;/td&gt;
132+
&lt;td style="text-align:right;"&gt; 9.805728 &lt;/td&gt;
133+
&lt;td style="text-align:right;"&gt; 10.624605 &lt;/td&gt;
134134
&lt;/tr&gt;
135135
&lt;tr&gt;
136136
&lt;td style="text-align:left;"&gt; Gene_h &lt;/td&gt;
137-
&lt;td style="text-align:right;"&gt; 8.487554 &lt;/td&gt;
138-
&lt;td style="text-align:right;"&gt; 10.142188 &lt;/td&gt;
139-
&lt;td style="text-align:right;"&gt; 10.277877 &lt;/td&gt;
137+
&lt;td style="text-align:right;"&gt; 8.785078 &lt;/td&gt;
138+
&lt;td style="text-align:right;"&gt; 10.179353 &lt;/td&gt;
139+
&lt;td style="text-align:right;"&gt; 9.447519 &lt;/td&gt;
140140
&lt;/tr&gt;
141141
&lt;/tbody&gt;
142142
&lt;/table&gt;

0 commit comments

Comments
 (0)