-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathindex.qmd
95 lines (61 loc) · 4.56 KB
/
index.qmd
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
---
title: "Mini-course compositional data analysis 2024"
tbl-colwidths: [20, 60, 20]
---
Date: **Jan 9-10 2024**
Room: **Location TBA**
Instructors: Christian L. Müller, Stefanie Peschel, Viet Tran
------------------------------------------------------------------------
<!-- ::: callout-note -->
<!-- ## This workshop template -->
<!-- This workshop template contains 4 pages: -->
<!-- - Home: `index.qmd` (this page) -->
<!-- - About: `about.qmd` -->
<!-- Two content pages -->
<!-- - Page without code: `part_1_prep.qmd` -->
<!-- - Page with R code: `part_2_eda.qmd` -->
<!-- It is straightforward to add more content pages: you need to create a new `.qmd` file (or copy/paste the existing ones), then link the new page inside `_quarto.yml`. -->
<!-- ::: -->
<!-- ::: callout-tip -->
<!-- ## Homepage of your workshop -->
<!-- This is the **homepage** `index.qmd` for your workshop, so ideally it should contain some key information such as **time and place, instructors** and information of the course/workshop. -->
<!-- It should be easy to navigate. -->
<!-- ::: -->
# Welcome!
- The goal of the workshop is to help participants understand and apply concepts of compositional data analysis
- Workshop material can be found in the workshop github repository (TBA).
#### Learning Objectives
At the end of the course, participants will be able to
- understand key concepts of compositional data analysis
- apply concepts of compositional data analysis in R
#### Pre-requisites
- Basic familiarity with R (e.g., [tutorial R for ecology](https://datacarpentry.org/R-ecology-lesson/index.html))
# Schedule
Tuesday
| Time | Topic | Presenter |
|:-----------------|:------------------------------------|:-----------------|
| 9:00 - 10:00 | Session 1: Intro to compositional sequencing data | Instructor CLM |
| 10:15 - 11:00 | Presentation of student data (fast track) | all |
| 11:15 - 12:00 | Session 2: Principles of compositional data | Instructor CLM |
| 12:00 - 13:00 | Lunch break | all |
| 13:00 - 14:00 | Session 3: Exploratory analysis of compositional data in R (part I) | Instructor CLM, VT |
| 14:15 - 15:15 | [Session 4: Exploratory analysis of compositional data in R (part II)](4_eda_88soils.qmd) | Instructor CLM, SP |
| 15:15 - 15:45 | Fika | all |
| 15:45 - 17:00 | Session 5: Differential abundance testing and regression | Instructor CLM, VT |
| 17:00 - open end | Application to own data | all |
Wednesday
| Time | Topic | Presenter |
|:-----------------|:------------------------------------|:-----------------|
| 9:00 - 09:30 | Recap and open issues | Instructor CLM |
| 9:45 - 10:45 | Session 6: Regression analysis for compositional data | Instructor CLM, VT |
| 11:00 - 12:00 | [Session 7: Estimating microbial association networks](slides/07-Microbial_association_networks_outlook.pdf) | Instructor CLM, SP |
| 12:00 - 13:00 | Lunch break | all |
| 13:00 - 13:30 | [Session 8: Practical applications of learned concepts in R (regression)](9_practical.qmd) | Instructor SP, VT |
| 13:30 - 14:00 | [Session 8: Practical applications of learned concepts in R (networks)](8_practical_networks.qmd) | Instructor SP, VT |
| 14:15 - 15:15 | Session 9: Time series analysis for compositional data | Instructor CLM |
| 15:15 - 15:45 | Fika | all |
| 15:45 - 16:15 | Session 10: Recap and further topics | Instructor CLM |
| 16:15 - open end | Application to own data | all |
# Additional material
- [Construct the soil phyloseq object](90_soil_phyloseq.qmd)
Website created with the [qtwAcademic template](https://github.com/andreaczhang/qtwAcademic) based on quarto.