From cfab2c1977b9010c5ca7f4fd5289657133f7ad6b Mon Sep 17 00:00:00 2001
From: Quarto GHA Workflow Runner
Date: Sun, 23 Jun 2024 14:37:29 +0000
Subject: [PATCH] Built site for gh-pages
---
.nojekyll | 2 +-
index.html | 960 +++++++++++++++++++++++++++++++++++++++++++++++++++-
search.json | 2 +-
sitemap.xml | 30 +-
4 files changed, 976 insertions(+), 18 deletions(-)
diff --git a/.nojekyll b/.nojekyll
index 0adcb7c9..2856e21f 100644
--- a/.nojekyll
+++ b/.nojekyll
@@ -1 +1 @@
-6d117ecb
\ No newline at end of file
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diff --git a/index.html b/index.html
index 963b81b7..d523e260 100644
--- a/index.html
+++ b/index.html
@@ -240,8 +240,966 @@ MOLB 7950: Informatics and Statistics for Molecular BiologyThis page contains an outline of the topics, content, and assignments for the semester. Note that this schedule will be updated as the semester progresses, with all changes documented here.
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+Classes held in-person in TBD, 9:00-10:30am |
+
+
+
+Prepare |
+Slides |
+Exercises |
+HW |
+Key |
+
+
+
+
+Week 1 |
+
+
+01 |
+Mon, Aug 26, 2024 |
+Bootcamp |
+R |
+Taliaferro |
+Intro to R & RStudio |
+š |
+š |
+šŖ |
+š§ |
+. |
+
+
+02 |
+Tue, Aug 27, 2024 |
+Bootcamp |
+R |
+Taliaferro |
+Tidy data & tidyr |
+. |
+. |
+. |
+. |
+. |
+
+
+03 |
+Wed, Aug 28, 2024 |
+Bootcamp |
+R |
+Taliaferro |
+dplyr |
+. |
+. |
+. |
+. |
+. |
+
+
+04 |
+Thu, Aug 29, 2024 |
+Bootcamp |
+R |
+Taliaferro |
+ggplot2 |
+. |
+. |
+. |
+. |
+. |
+
+
+05 |
+Fri, Aug 30, 2024 |
+Bootcamp |
+R |
+Taliaferro |
+ggplot2 |
+. |
+. |
+. |
+. |
+. |
+
+
+Week 2 |
+
+
+06 |
+Mon, Sep 2, 2024 |
+- |
+- |
+- |
+NO CLASS: LABOR DAY |
+. |
+. |
+. |
+. |
+. |
+
+
+07 |
+Tue, Sep 3, 2024 |
+Bootcamp |
+R |
+Taliaferro |
+tidyverse odds & ends |
+. |
+. |
+. |
+. |
+. |
+
+
+08 |
+Wed, Sep 4, 2024 |
+Bootcamp |
+R |
+Taliaferro |
+putting it all together |
+. |
+. |
+. |
+. |
+. |
+
+
+09 |
+Thu, Sep 5, 2024 |
+Bootcamp |
+R |
+Taliaferro |
+putting it all together |
+. |
+. |
+. |
+. |
+. |
+
+
+10 |
+Fri, Sep 6, 2024 |
+Bootcamp |
+Statistics |
+Ramachandran |
+Stats intro and history |
+. |
+. |
+. |
+. |
+. |
+
+
+Week 3 |
+
+
+11 |
+Mon, Sep 9, 2024 |
+Bootcamp |
+Statistics |
+Ramachandran |
+Probability and descriptive stats |
+. |
+. |
+. |
+. |
+. |
+
+
+12 |
+Tue, Sep 10, 2024 |
+Bootcamp |
+Statistics |
+Ramachandran |
+Hypothesis testing |
+. |
+. |
+. |
+. |
+. |
+
+
+13 |
+Wed, Sep 11, 2024 |
+Bootcamp |
+Statistics |
+Ramachandran |
+Hypothesis testing |
+. |
+. |
+. |
+. |
+. |
+
+
+14 |
+Thu, Sep 12, 2024 |
+Bootcamp |
+Statistics |
+Ramachandran |
+Exploratory data analysis |
+. |
+. |
+. |
+. |
+. |
+
+
+15 |
+Fri, Sep 13, 2024 |
+Bootcamp |
+Statistics |
+Ramachandran |
+Big data concerns |
+. |
+. |
+. |
+. |
+. |
+
+
+Week 4 |
+
+
+16 |
+Mon, Sep 16, 2024 |
+DNA |
+Mapping chromatin structure and transactions |
+Ramachandran |
+Experimental overview |
+. |
+. |
+. |
+. |
+. |
+
+
+17 |
+Wed, Sep 18, 2024 |
+DNA |
+Chromatin-centric methods |
+Ramachandran |
+Information from fragment length distributions |
+. |
+. |
+. |
+. |
+. |
+
+
+18 |
+Fri, Sep 20, 2024 |
+DNA |
+Chromatin-centric methods |
+Ramachandran |
+Meta-plots and heatmaps |
+. |
+. |
+. |
+. |
+. |
+
+
+Week 5 |
+
+
+19 |
+Mon, Sep 23, 2024 |
+DNA |
+Where do proteins bind in the genome? |
+Ramachandran |
+Experimental overview |
+. |
+. |
+. |
+. |
+. |
+
+
+20 |
+Wed, Sep 25, 2024 |
+DNA |
+Factor-centric methods |
+Ramachandran |
+Peak calling |
+. |
+. |
+. |
+. |
+. |
+
+
+21 |
+Fri, Sep 27, 2024 |
+DNA |
+Factor-centric methods |
+Ramachandran |
+Sequence motif analysis |
+. |
+. |
+. |
+. |
+. |
+
+
+Week 6 |
+
+
+22 |
+Mon, Sep 30, 2024 |
+RNA |
+RNA-seq Overview |
+Taliaferro |
+- |
+. |
+. |
+. |
+. |
+. |
+
+
+23 |
+Wed, Oct 2, 2024 |
+RNA |
+Differential Gene Expression |
+Taliaferro |
+- |
+. |
+. |
+. |
+. |
+. |
+
+
+24 |
+Fri, Oct 4, 2024 |
+RNA |
+Differential Gene Expression |
+Taliaferro |
+- |
+. |
+. |
+. |
+. |
+. |
+
+
+Week 7 |
+
+
+25 |
+Mon, Oct 7, 2024 |
+RNA |
+Alternative Splicing |
+Taliaferro |
+- |
+. |
+. |
+. |
+. |
+. |
+
+
+26 |
+Wed, Oct 9, 2024 |
+RNA |
+Vignette |
+Taliaferro |
+- |
+. |
+. |
+. |
+. |
+. |
+
+
+27 |
+Fri, Oct 11, 2024 |
+- |
+- |
+- |
+NO CLASS: CSDV RETREAT |
+. |
+. |
+. |
+. |
+. |
+
+
+Week 8 |
+
+
+28 |
+Mon, Oct 14, 2024 |
+RNA |
+RBP |
+Taliaferro |
+- |
+. |
+. |
+. |
+. |
+. |
+
+
+29 |
+Wed, Oct 16, 2024 |
+RNA |
+RBP |
+Taliaferro |
+- |
+. |
+. |
+. |
+. |
+. |
+
+
+30 |
+Fri, Oct 18, 2024 |
+RNA |
+Long-read sequencing |
+Hesselberth |
+- |
+. |
+. |
+. |
+. |
+. |
+
+
+Week 9 |
+
+
+31 |
+Mon, Oct 21, 2024 |
+RNA |
+Single-cell |
+Riemondy |
+- |
+. |
+. |
+. |
+. |
+. |
+
+
+32 |
+Wed, Oct 23, 2024 |
+RNA |
+Single-cell |
+Riemondy |
+- |
+. |
+. |
+. |
+. |
+. |
+
+
+33 |
+Fri, Oct 25, 2024 |
+- |
+- |
+- |
+NO CLASS: MOLB RETREAT |
+. |
+. |
+. |
+. |
+. |
+
+
+Week 10 |
+
+
+34 |
+Mon, Oct 28, 2024 |
+Final |
+- |
+- |
+Final project presentations |
+. |
+. |
+. |
+. |
+. |
+
+
+35 |
+Wed, Oct 30, 2024 |
+Final |
+- |
+- |
+Final project presentations |
+. |
+. |
+. |
+. |
+. |
+
+
+
+
+
+
diff --git a/search.json b/search.json
index 9f9b4cc8..d7557368 100644
--- a/search.json
+++ b/search.json
@@ -82,7 +82,7 @@
"href": "index.html",
"title": "MOLB 7950: Informatics and Statistics for Molecular Biology",
"section": "",
- "text": "This page contains an outline of the topics, content, and assignments for the semester. Note that this schedule will be updated as the semester progresses, with all changes documented here.",
+ "text": "This page contains an outline of the topics, content, and assignments for the semester. Note that this schedule will be updated as the semester progresses, with all changes documented here.\n\n\n\n\n\n\n\n\nMOLB 7950 - Fall 2023 Schedule\n\n\nClasses held in-person in TBD, 9:00-10:30am\n\n\n\nDate\nBlock\nTopic\nInstructor\nTitle\nLinks\n\n\nPrepare\nSlides\nExercises\nHW\nKey\n\n\n\n\nWeek 1\n\n\n01\nMon, Aug 26, 2024\nBootcamp\nR\nTaliaferro\nIntro to R & RStudio\nš\nš\nšŖ\nš§ \n.\n\n\n02\nTue, Aug 27, 2024\nBootcamp\nR\nTaliaferro\nTidy data & tidyr\n.\n.\n.\n.\n.\n\n\n03\nWed, Aug 28, 2024\nBootcamp\nR\nTaliaferro\ndplyr\n.\n.\n.\n.\n.\n\n\n04\nThu, Aug 29, 2024\nBootcamp\nR\nTaliaferro\nggplot2\n.\n.\n.\n.\n.\n\n\n05\nFri, Aug 30, 2024\nBootcamp\nR\nTaliaferro\nggplot2\n.\n.\n.\n.\n.\n\n\nWeek 2\n\n\n06\nMon, Sep 2, 2024\n-\n-\n-\nNO CLASS: LABOR DAY\n.\n.\n.\n.\n.\n\n\n07\nTue, Sep 3, 2024\nBootcamp\nR\nTaliaferro\ntidyverse odds & ends\n.\n.\n.\n.\n.\n\n\n08\nWed, Sep 4, 2024\nBootcamp\nR\nTaliaferro\nputting it all together\n.\n.\n.\n.\n.\n\n\n09\nThu, Sep 5, 2024\nBootcamp\nR\nTaliaferro\nputting it all together\n.\n.\n.\n.\n.\n\n\n10\nFri, Sep 6, 2024\nBootcamp\nStatistics\nRamachandran\nStats intro and history\n.\n.\n.\n.\n.\n\n\nWeek 3\n\n\n11\nMon, Sep 9, 2024\nBootcamp\nStatistics\nRamachandran\nProbability and descriptive stats\n.\n.\n.\n.\n.\n\n\n12\nTue, Sep 10, 2024\nBootcamp\nStatistics\nRamachandran\nHypothesis testing\n.\n.\n.\n.\n.\n\n\n13\nWed, Sep 11, 2024\nBootcamp\nStatistics\nRamachandran\nHypothesis testing\n.\n.\n.\n.\n.\n\n\n14\nThu, Sep 12, 2024\nBootcamp\nStatistics\nRamachandran\nExploratory data analysis\n.\n.\n.\n.\n.\n\n\n15\nFri, Sep 13, 2024\nBootcamp\nStatistics\nRamachandran\nBig data concerns\n.\n.\n.\n.\n.\n\n\nWeek 4\n\n\n16\nMon, Sep 16, 2024\nDNA\nMapping chromatin structure and transactions\nRamachandran\nExperimental overview\n.\n.\n.\n.\n.\n\n\n17\nWed, Sep 18, 2024\nDNA\nChromatin-centric methods\nRamachandran\nInformation from fragment length distributions\n.\n.\n.\n.\n.\n\n\n18\nFri, Sep 20, 2024\nDNA\nChromatin-centric methods\nRamachandran\nMeta-plots and heatmaps\n.\n.\n.\n.\n.\n\n\nWeek 5\n\n\n19\nMon, Sep 23, 2024\nDNA\nWhere do proteins bind in the genome?\nRamachandran\nExperimental overview\n.\n.\n.\n.\n.\n\n\n20\nWed, Sep 25, 2024\nDNA\nFactor-centric methods\nRamachandran\nPeak calling\n.\n.\n.\n.\n.\n\n\n21\nFri, Sep 27, 2024\nDNA\nFactor-centric methods\nRamachandran\nSequence motif analysis\n.\n.\n.\n.\n.\n\n\nWeek 6\n\n\n22\nMon, Sep 30, 2024\nRNA\nRNA-seq Overview\nTaliaferro\n-\n.\n.\n.\n.\n.\n\n\n23\nWed, Oct 2, 2024\nRNA\nDifferential Gene Expression\nTaliaferro\n-\n.\n.\n.\n.\n.\n\n\n24\nFri, Oct 4, 2024\nRNA\nDifferential Gene Expression\nTaliaferro\n-\n.\n.\n.\n.\n.\n\n\nWeek 7\n\n\n25\nMon, Oct 7, 2024\nRNA\nAlternative Splicing\nTaliaferro\n-\n.\n.\n.\n.\n.\n\n\n26\nWed, Oct 9, 2024\nRNA\nVignette\nTaliaferro\n-\n.\n.\n.\n.\n.\n\n\n27\nFri, Oct 11, 2024\n-\n-\n-\nNO CLASS: CSDV RETREAT\n.\n.\n.\n.\n.\n\n\nWeek 8\n\n\n28\nMon, Oct 14, 2024\nRNA\nRBP\nTaliaferro\n-\n.\n.\n.\n.\n.\n\n\n29\nWed, Oct 16, 2024\nRNA\nRBP\nTaliaferro\n-\n.\n.\n.\n.\n.\n\n\n30\nFri, Oct 18, 2024\nRNA\nLong-read sequencing\nHesselberth\n-\n.\n.\n.\n.\n.\n\n\nWeek 9\n\n\n31\nMon, Oct 21, 2024\nRNA\nSingle-cell\nRiemondy\n-\n.\n.\n.\n.\n.\n\n\n32\nWed, Oct 23, 2024\nRNA\nSingle-cell\nRiemondy\n-\n.\n.\n.\n.\n.\n\n\n33\nFri, Oct 25, 2024\n-\n-\n-\nNO CLASS: MOLB RETREAT\n.\n.\n.\n.\n.\n\n\nWeek 10\n\n\n34\nMon, Oct 28, 2024\nFinal\n-\n-\nFinal project presentations\n.\n.\n.\n.\n.\n\n\n35\nWed, Oct 30, 2024\nFinal\n-\n-\nFinal project presentations\n.\n.\n.\n.\n.",
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"Course information",
"Schedule"
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index 479a10ca..f1bc3e24 100644
--- a/sitemap.xml
+++ b/sitemap.xml
@@ -2,62 +2,62 @@
https://rnabioco.github.io/molb-7950/zzz.html
- 2024-06-23T00:04:54.110Z
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https://rnabioco.github.io/molb-7950/resources/plot-competition.html
- 2024-06-23T00:04:54.106Z
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https://rnabioco.github.io/molb-7950/problem-sets/ps-01.html
- 2024-06-23T00:04:54.106Z
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https://rnabioco.github.io/molb-7950/index.html
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https://rnabioco.github.io/molb-7950/course-info/team.html
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https://rnabioco.github.io/molb-7950/course-info/support.html
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https://rnabioco.github.io/molb-7950/course-info/final-projects.html
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https://rnabioco.github.io/molb-7950/slides/slides-01.html
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