add lect 12

course-admin/schedule_2024.csv

@@ -1,47 +1,47 @@
-course,lect,dow,month,day,week,lecture_num,raw_notes,instructor
-STAT540-Seminar,seminar-1,Tue,January,9,1,1,"Introduction to version control, Git, GitHub", Ishika
-STAT540-Seminar,seminar-2a,Tue,January,16,2,2,"Introduction to Markdown, Knitr", Ishika
-STAT540-Seminar,seminar-2b,Tue,January,16,2,2,R graphics -- Intro to ggplot2, Ishika
-STAT540-Seminar,seminar-3,Tue,January,23,3,3,Probability and simulations, Ishika
-STAT540-Seminar,seminar-4,Tue,January,30,4,4,Reading in data and wrangling, Asfar
-STAT540-Seminar,seminar-5,Tue,February,6,5,5,"Two group testing, fitting and interpreting linear models", Asfar
-STAT540-Seminar,seminar-6,Tue,February,13,6,6,RNA-seq: from beginning to end -- BAM to count data, Ishika
-STAT540-Seminar,No Seminar,Tue,February,20,7,NA,No seminar (reading break),
-STAT540-Seminar,seminar-7,Tue,February,27,8,7,Methylation microarray analysis, Asfar
-STAT540-Seminar,No Seminar,Tue,March,5,9,NA,No seminar,
-STAT540-Seminar,seminar-8,Tue,March,12,10,8,Gene set enrichment analysis, Asfar
-STAT540-Seminar,seminar-9,Tue,March,19,11,9,Unsupervised learning - clustering and dimension reduction, Asfar
-STAT540-Seminar,seminar-10,Tue,March,26,12,10,"Supervised learning, cross-validation, variable selection", Ishika
-STAT540-Seminar,seminar-11,Tue,April,2,13,11,eQTL analysis, Ishika
-STAT540-Seminar,No Seminar,Tue,April,9,14,NA,No seminar,
-,,,,,,,,
-,,,,,,,,
-,,dow,month,day,week,,,
-STAT540,lecture-1,Tue,January,9,1,1,Course intro; Molecular biology primer,Keegan
-STAT540,lecture-2,Thu,January,11,1,2,"High-dimensional biology intro: RNA, DNA, methylation, ChIP-Seq",Keegan
-STAT540,lecture-3,Tue,January,16,2,3,Exploratory data analysis,Keegan
-STAT540,lecture-4,Thu,January,18,2,4,Statistics & probability primer,Keegan
-STAT540,lecture-5,Tue,January,23,3,5,Statistical inference: two groups,Keegan
-STAT540,lecture-6,Thu,January,25,3,6,Statistical inference: linear regression & ANOVA,Keegan
-STAT540,Presentations,Tue,January,30,4,NA,Project lightning talk,
-STAT540,lecture-7,Thu,February,1,4,7,Statistical inference: multiple linear regression,Keegan
-STAT540,lecture-8,Tue,February,6,5,8,Statistical inference: continuous model & limma,Keegan
-STAT540,lecture-9,Thu,February,8,5,9,Statistical inference: multiple testing,Keegan
-STAT540,lecture-10,Tue,February,13,6,10,Application of statistical inference to RNA-seq,Yongjin
-STAT540,lecture-11,Thu,February,15,6,11,Application of statistical inference to epigenetics,Yongjin
-STAT540,break,Tue,February,20,7,NA,Reading break (no class),
-STAT540,break,Thu,February,22,7,NA,Reading break (no class),
-STAT540,lecture-12,Tue,February,27,8,12,Gene set enrichment; confounding and batch effects,Keegan
-STAT540,lecture-13,Thu,February,29,8,13,"Supervised learning: GWAS and eQTL",Yongjin
-STAT540,lecture-14,Tue,March,5,9,14,"Supervised learning: polygenic risk prediction",Yongjin
-STAT540,lecture-15,Thu,March,7,9,15,"Supervised learning: post-GWAS & causal inference",Yongjin
-STAT540,lecture-16,Tue,March,12,10,16,"Single-cell data analysis: technology and data normalization",Yongjin
-STAT540,lecture-17,Thu,March,14,10,17,"Unsupervised learning: application of latent factor models to scRNA-seq",Yongjin
-STAT540,lecture-18,Tue,March,19,11,18,"Unsupervised learning: recent approaches",Yongjin
-STAT540,lecture-19,Thu,March,21,11,19,"Model-based analysis: statistical learning methods in genomics",Yongjin
-STAT540,lecture-20,Tue,March,26,12,20,"Spatial Transcriptomics",Yongjin
-STAT540,lecture-21,Thu,March,28,12,21,"Multiomics data integration",Yongjin
-STAT540,Presentations,Tue,April,2,13,NA,Final Project Presentations,
-STAT540,Presentations,Thu,April,4,13,NA,Final Project Presentations,
-STAT540,Presentations,Tue,April,9,14,NA,Final Project Presentations,
+course,lect,dow,month,day,week,lecture_num,raw_notes,instructor
+STAT540-Seminar,seminar-1,Tue,January,9,1,1,"Introduction to version control, Git, GitHub", Ishika
+STAT540-Seminar,seminar-2a,Tue,January,16,2,2,"Introduction to Markdown, Knitr", Ishika
+STAT540-Seminar,seminar-2b,Tue,January,16,2,2,R graphics -- Intro to ggplot2, Ishika
+STAT540-Seminar,seminar-3,Tue,January,23,3,3,Probability and simulations, Ishika
+STAT540-Seminar,seminar-4,Tue,January,30,4,4,Reading in data and wrangling, Asfar
+STAT540-Seminar,seminar-5,Tue,February,6,5,5,"Two group testing, fitting and interpreting linear models", Asfar
+STAT540-Seminar,seminar-6,Tue,February,13,6,6,RNA-seq: from beginning to end -- BAM to count data, Ishika
+STAT540-Seminar,No Seminar,Tue,February,20,7,NA,No seminar (reading break),
+STAT540-Seminar,seminar-7,Tue,February,27,8,7,Methylation microarray analysis, Asfar
+STAT540-Seminar,No Seminar,Tue,March,5,9,NA,No seminar,
+STAT540-Seminar,seminar-8,Tue,March,12,10,8,Gene set enrichment analysis, Asfar
+STAT540-Seminar,seminar-9,Tue,March,19,11,9,Unsupervised learning - clustering and dimension reduction, Asfar
+STAT540-Seminar,seminar-10,Tue,March,26,12,10,"Supervised learning, cross-validation, variable selection", Ishika
+STAT540-Seminar,seminar-11,Tue,April,2,13,11,eQTL analysis, Ishika
+STAT540-Seminar,No Seminar,Tue,April,9,14,NA,No seminar,
+,,,,,,,,
+,,,,,,,,
+,,dow,month,day,week,,,
+STAT540,lecture-1,Tue,January,9,1,1,Course intro; Molecular biology primer,Keegan
+STAT540,lecture-2,Thu,January,11,1,2,"High-dimensional biology intro: RNA, DNA, methylation, ChIP-Seq",Keegan
+STAT540,lecture-3,Tue,January,16,2,3,Exploratory data analysis; confounding & batch effects,Keegan
+STAT540,lecture-4,Thu,January,18,2,4,Statistics & probability primer,Keegan
+STAT540,lecture-5,Tue,January,23,3,5,Statistical inference: two groups,Keegan
+STAT540,lecture-6,Thu,January,25,3,6,Statistical inference: linear regression & ANOVA,Keegan
+STAT540,Presentations,Tue,January,30,4,NA,Project lightning talk,
+STAT540,lecture-7,Thu,February,1,4,7,Statistical inference: multiple linear regression,Keegan
+STAT540,lecture-8,Tue,February,6,5,8,Statistical inference: continuous model & limma,Keegan
+STAT540,lecture-9,Thu,February,8,5,9,Statistical inference: multiple testing,Keegan
+STAT540,lecture-10,Tue,February,13,6,10,Application of statistical inference to RNA-seq,Yongjin
+STAT540,lecture-11,Thu,February,15,6,11,Application of statistical inference to epigenetics,Yongjin
+STAT540,break,Tue,February,20,7,NA,Reading break (no class),
+STAT540,break,Thu,February,22,7,NA,Reading break (no class),
+STAT540,lecture-12,Tue,February,27,8,12,Gene set enrichment,Keegan
+STAT540,lecture-13,Thu,February,29,8,13,Supervised learning: GWAS and eQTL,Yongjin
+STAT540,lecture-14,Tue,March,5,9,14,Supervised learning: polygenic risk prediction,Yongjin
+STAT540,lecture-15,Thu,March,7,9,15,Supervised learning: post-GWAS & causal inference,Yongjin
+STAT540,lecture-16,Tue,March,12,10,16,Single-cell data analysis: technology and data normalization,Yongjin
+STAT540,lecture-17,Thu,March,14,10,17,Unsupervised learning: application of latent factor models to scRNA-seq,Yongjin
+STAT540,lecture-18,Tue,March,19,11,18,Unsupervised learning: recent approaches,Yongjin
+STAT540,lecture-19,Thu,March,21,11,19,Model-based analysis: statistical learning methods in genomics,Yongjin
+STAT540,lecture-20,Tue,March,26,12,20,Spatial Transcriptomics,Yongjin
+STAT540,lecture-21,Thu,March,28,12,21,Multiomics data integration,Yongjin
+STAT540,Presentations,Tue,April,2,13,NA,Final Project Presentations,
+STAT540,Presentations,Thu,April,4,13,NA,Final Project Presentations,
+STAT540,Presentations,Tue,April,9,14,NA,Final Project Presentations,
 STAT540,Presentations,Thu,April,11,14,NA,Final Project Presentations,

lectures.html

@@ -2594,7 +2594,7 @@ <h3 id="class-meetings-and-schedule">Class meetings and schedule</h3>
 <a href="https://github.com/STAT540-UBC/lectures/blob/main/lect03-eda/README.md">1</a>
 </td>
 <td style="text-align:left;">
-<a href="https://stat540-ubc.github.io/lectures/lect03-eda/lect03-eda.html">Lecture 3</a>: Exploratory data analysis
+<a href="https://stat540-ubc.github.io/lectures/lect03-eda/lect03-eda.html">Lecture 3</a>: Exploratory data analysis; confounding &amp; batch effects
 </td>
 <td style="text-align:left;">
 Keegan
@@ -2759,7 +2759,7 @@ <h3 id="class-meetings-and-schedule">Class meetings and schedule</h3>
 <a href="https://github.com/STAT540-UBC/lectures/blob/main/lect12-gsea/README.md">1</a>
 </td>
 <td style="text-align:left;">
-Lecture 12: Gene set enrichment; confounding and batch effects
+<a href="https://stat540-ubc.github.io/lectures/lect12-gsea/lect12-gsea.html">Lecture 12</a>: Gene set enrichment
 </td>
 <td style="text-align:left;">
 Keegan

search.json

@@ -68,8 +68,8 @@
       "path": "lectures.html",
       "title": "Lectures",
       "author": [],
-      "contents": "\nClass meetings and schedule\nTime : Tues Thurs 9:00 - 10:30am\nLocation: Building and room number listed on Canvas\n\n\nDate\n\n\nPre-reading\n\n\nTopic\n\n\nInstructor\n\n\nTue Jan 9\n\n\n1\n\n\nLecture 1: Course intro; Molecular biology primer\n\n\nKeegan\n\n\nThu Jan 11\n\n\n\n\nLecture 2: High-dimensional biology intro: RNA, DNA, methylation, ChIP-Seq\n\n\nKeegan\n\n\nTue Jan 16\n\n\n1\n\n\nLecture 3: Exploratory data analysis\n\n\nKeegan\n\n\nThu Jan 18\n\n\n1,\n2,\n3\n\n\nLecture 4: Statistics & probability primer\n\n\nKeegan\n\n\nTue Jan 23\n\n\n1\n\n\nLecture 5: Statistical inference: two groups\n\n\nKeegan\n\n\nThu Jan 25\n\n\n1,\n2,\n3\n\n\nLecture 6: Statistical inference: linear regression & ANOVA\n\n\nKeegan\n\n\nTue Jan 30\n\n\n\n\nProject lightning talk\n\n\n\n\nThu Feb 1\n\n\n1\n\n\nLecture 7: Statistical inference: multiple linear regression\n\n\nKeegan\n\n\nTue Feb 6\n\n\n1\n\n\nLecture 8: Statistical inference: continuous model & limma\n\n\nKeegan\n\n\nThu Feb 8\n\n\n1\n\n\nLecture 9: Statistical inference: multiple testing\n\n\nKeegan\n\n\nTue Feb 13\n\n\n1\n\n\nLecture 10: Application of statistical inference to RNA-seq\n\n\nYongjin\n\n\nThu Feb 15\n\n\n\n\nLecture 11: Application of statistical inference to epigenetics\n\n\nYongjin\n\n\nTue Feb 20\n\n\n\n\nReading break (no class)\n\n\n\n\nThu Feb 22\n\n\n\n\nReading break (no class)\n\n\n\n\nTue Feb 27\n\n\n1\n\n\nLecture 12: Gene set enrichment; confounding and batch effects\n\n\nKeegan\n\n\nThu Feb 29\n\n\n\n\nLecture 13: Supervised learning: GWAS and eQTL\n\n\nYongjin\n\n\nTue Mar 5\n\n\n\n\nLecture 14: Supervised learning: polygenic risk prediction\n\n\nYongjin\n\n\nThu Mar 7\n\n\n\n\nLecture 15: Supervised learning: post-GWAS & causal inference\n\n\nYongjin\n\n\nTue Mar 12\n\n\n\n\nLecture 16: Single-cell data analysis: technology and data normalization\n\n\nYongjin\n\n\nThu Mar 14\n\n\n\n\nLecture 17: Unsupervised learning: application of latent factor models to scRNA-seq\n\n\nYongjin\n\n\nTue Mar 19\n\n\n\n\nLecture 18: Unsupervised learning: recent approaches\n\n\nYongjin\n\n\nThu Mar 21\n\n\n\n\nLecture 19: Model-based analysis: statistical learning methods in genomics\n\n\nYongjin\n\n\nTue Mar 26\n\n\n\n\nLecture 20: Spatial Transcriptomics\n\n\nYongjin\n\n\nThu Mar 28\n\n\n\n\nLecture 21: Multiomics data integration\n\n\nYongjin\n\n\nTue Apr 2\n\n\n\n\nFinal Project Presentations\n\n\n\n\nThu Apr 4\n\n\n\n\nFinal Project Presentations\n\n\n\n\nTue Apr 9\n\n\n\n\nFinal Project Presentations\n\n\n\n\nThu Apr 11\n\n\n\n\nFinal Project Presentations\n\n\n\n\nSupplemental Files:\nAdditional companion notes can be found in the STAT540-UBC/resources GitHub repo\nSource files for lectures can be found the STAT540-UBC/lectures GitHub repo\n\n\n\n",
-      "last_modified": "2024-02-22T11:50:08-08:00"
+      "contents": "\nClass meetings and schedule\nTime : Tues Thurs 9:00 - 10:30am\nLocation: Building and room number listed on Canvas\n\n\nDate\n\n\nPre-reading\n\n\nTopic\n\n\nInstructor\n\n\nTue Jan 9\n\n\n1\n\n\nLecture 1: Course intro; Molecular biology primer\n\n\nKeegan\n\n\nThu Jan 11\n\n\n\n\nLecture 2: High-dimensional biology intro: RNA, DNA, methylation, ChIP-Seq\n\n\nKeegan\n\n\nTue Jan 16\n\n\n1\n\n\nLecture 3: Exploratory data analysis; confounding & batch effects\n\n\nKeegan\n\n\nThu Jan 18\n\n\n1,\n2,\n3\n\n\nLecture 4: Statistics & probability primer\n\n\nKeegan\n\n\nTue Jan 23\n\n\n1\n\n\nLecture 5: Statistical inference: two groups\n\n\nKeegan\n\n\nThu Jan 25\n\n\n1,\n2,\n3\n\n\nLecture 6: Statistical inference: linear regression & ANOVA\n\n\nKeegan\n\n\nTue Jan 30\n\n\n\n\nProject lightning talk\n\n\n\n\nThu Feb 1\n\n\n1\n\n\nLecture 7: Statistical inference: multiple linear regression\n\n\nKeegan\n\n\nTue Feb 6\n\n\n1\n\n\nLecture 8: Statistical inference: continuous model & limma\n\n\nKeegan\n\n\nThu Feb 8\n\n\n1\n\n\nLecture 9: Statistical inference: multiple testing\n\n\nKeegan\n\n\nTue Feb 13\n\n\n1\n\n\nLecture 10: Application of statistical inference to RNA-seq\n\n\nYongjin\n\n\nThu Feb 15\n\n\n\n\nLecture 11: Application of statistical inference to epigenetics\n\n\nYongjin\n\n\nTue Feb 20\n\n\n\n\nReading break (no class)\n\n\n\n\nThu Feb 22\n\n\n\n\nReading break (no class)\n\n\n\n\nTue Feb 27\n\n\n1\n\n\nLecture 12: Gene set enrichment\n\n\nKeegan\n\n\nThu Feb 29\n\n\n\n\nLecture 13: Supervised learning: GWAS and eQTL\n\n\nYongjin\n\n\nTue Mar 5\n\n\n\n\nLecture 14: Supervised learning: polygenic risk prediction\n\n\nYongjin\n\n\nThu Mar 7\n\n\n\n\nLecture 15: Supervised learning: post-GWAS & causal inference\n\n\nYongjin\n\n\nTue Mar 12\n\n\n\n\nLecture 16: Single-cell data analysis: technology and data normalization\n\n\nYongjin\n\n\nThu Mar 14\n\n\n\n\nLecture 17: Unsupervised learning: application of latent factor models to scRNA-seq\n\n\nYongjin\n\n\nTue Mar 19\n\n\n\n\nLecture 18: Unsupervised learning: recent approaches\n\n\nYongjin\n\n\nThu Mar 21\n\n\n\n\nLecture 19: Model-based analysis: statistical learning methods in genomics\n\n\nYongjin\n\n\nTue Mar 26\n\n\n\n\nLecture 20: Spatial Transcriptomics\n\n\nYongjin\n\n\nThu Mar 28\n\n\n\n\nLecture 21: Multiomics data integration\n\n\nYongjin\n\n\nTue Apr 2\n\n\n\n\nFinal Project Presentations\n\n\n\n\nThu Apr 4\n\n\n\n\nFinal Project Presentations\n\n\n\n\nTue Apr 9\n\n\n\n\nFinal Project Presentations\n\n\n\n\nThu Apr 11\n\n\n\n\nFinal Project Presentations\n\n\n\n\nSupplemental Files:\nAdditional companion notes can be found in the STAT540-UBC/resources GitHub repo\nSource files for lectures can be found the STAT540-UBC/lectures GitHub repo\n\n\n\n",
+      "last_modified": "2024-02-26T23:22:09-08:00"
     },
     {
       "path": "LICENSE.html",