The tentative schedule for this course is provided in Table 1. Please note that the instructor may adjust our schedule to accommodate the course’s progress and students’ needs. Any changes will be communicated to enrolled students in a timely manner.

Table 1: Tentative schedule for EEB603 Reproducible Science, Fall 2025 semester.
WeekID Date Weekday Topic Homework
1 2025-08-26 Tuesday Syllabus
1 2025-08-28 Thursday Chapt. 1 - part A Read the syllabus carefully and ask questions if you need any clarification
2 2025-09-02 Tuesday Chapt. 1 - part A Read your assigned publication for Chapter 1 - part A and identify its reproducibility challenges
2 2025-09-04 Thursday Chapt. 1 - part B Read Baker (2016) and Summary (pages 5-19) of the Reproducibility and replicability in science report (from The National Academies Press)
3 2025-09-09 Tuesday Chap. 2 - part A: Learning the basics Install software and Sign up for bioinformatics tutorial (see Syllabus )
3 2025-09-11 Thursday Review Chap. 2 - part A and Chap. 2 - part B: Setting Your R Markdown Document Complete Chapter 2 - part A
4 2025-09-16 Tuesday Review Chap. 2 - part B and Chap. 2 - part C: Tables, Figures and References Complete Chapter 2 - part B
4 2025-09-18 Thursday Chap. 2 - part C: Tables, Figures and References Complete Chapter 2 - part C
5 2025-09-23 Tuesday Review Chap. 2 - part C and Chap. 2 - part D: Advanced R and R Markdown settings TBD
5 2025-09-25 Thursday Chap. 2 - part E: User-Defined Functions in R TBD
6 2025-09-30 Tuesday Complete Chap. 2 - part E and Q&A on Chap. 2 Read material presented in Chapter 3
6 2025-10-02 Thursday Chap. 3: A roadmap to implement reproducible science in Ecology, Evolution & Behavior Read material presented in Chapter 4
7 2025-10-07 Tuesday Chap. 4: Open science and CARE principles Read material presented in Chapter 5 - Part A
7 2025-10-09 Thursday Chap. 5: Data management Read material presented in Chapter 5 - Part B + Download folder “Project_ID/“ on Google Drive under this path: Reproducible_Science > Exercises > Chapter_5
8 2025-10-14 Tuesday Chap. 6: Getting published Turn in tutorial for Chap. 7 & start individual reports
8 2025-10-16 Thursday Chap. 6: Writing papers in R Markdown (rticles) and Work on bioinformatic tutorials Upload tutorial of Chap. 7 on Google Drive
9 2025-10-21 Tuesday Bioinfo. tutorial - Chap. 7 Turn in tutorial for Chap. 8
9 2025-10-23 Thursday Bioinfo. tutorial - Chap. 7 Upload tutorial of Chap. 8 on Google Drive
10 2025-10-28 Tuesday Bioinfo. tutorial - Chap. 8 Turn in tutorial for Chap. 9
10 2025-10-30 Thursday Bioinfo. tutorial - Chap. 8 Upload tutorial of Chap. 9 on Google Drive
11 2025-11-04 Tuesday Bioinfo. tutorial - Chap. 9 Turn in tutorial for Chap. 10
11 2025-11-06 Thursday Bioinfo. tutorial - Chap. 9 Upload tutorial of Chap. 10 on Google Drive
12 2025-11-11 Tuesday Bioinfo. tutorial - Chap. 10 Turn in tutorial for Chap. 11
12 2025-11-13 Thursday Bioinfo. tutorial - Chap. 10 Upload tutorial of Chap. 11 on Google Drive
13 2025-11-18 Tuesday Bioinfo. tutorial - Chap. 11 Turn in tutorial for Chap. 12
13 2025-11-20 Thursday Bioinfo. tutorial - Chap. 11 Upload tutorial of Chap. 12 on Google Drive
15 2025-12-02 Tuesday Bioinfo. tutorial - Chap. 12 Students work on ind. projects: Review literature (see Syllabus)
15 2025-12-04 Thursday Bioinfo. tutorial - Chap. 12 Students work on ind. projects: Data management workflow
16 2025-12-09 Tuesday Individual projects - Q&A Students work on ind. projects: Data management workflow
16 2025-12-11 Thursday Individual projects - Q&A Turn in ind. projects (on Google Drive)
17 2025-12-16 Tuesday Oral presentations of individual projects
17 2025-12-18 Thursday Oral presentations of individual projects