class: center, middle, inverse, title-slide .title[ # Welcome and Introduction ] .subtitle[ ## Setting the Stage ] .author[ ### Dr. Christopher Kenaley ] .institute[ ### Boston College ] .date[ ### 2024/8/26 ] --- class: inverse, top # Hello! <!-- Add icon library --> <link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.14.0/css/all.min.css"> .pull-left[ Today we'll .... - Learn what the course is about - See how the course is organized ] .pull-right[  ] --- class: inverse, top <!-- slide 1 --> # Class details .pull-left[  https://bcorgbio.github.io/class Monday, Wednesday, Friday 10:00-10:50 for **some** lecturing and lots of in-person **problem solving** ] .pull-right[  kenaley@bc.edu <!-- Add font awesome icons --> <p style="text-align: left;"> <a href="https://twitter.com/kenaley" class="fab fa-twitter">@kenaley</a> </p> kenaleylab.org office hours by appointment in Higgins 425B (by appointment) ] --- class: # Meet and potatoes <table class="table" style="margin-left: auto; margin-right: auto;"> <tbody> <tr> <td style="text-align:left;background-color: white !important;"> </td> <td style="text-align:left;background-color: white !important;"> </td> <td style="text-align:left;background-color: white !important;"> Points </td> </tr> <tr> <td style="text-align:left;background-color: white !important;"> Discussion Q&A </td> <td style="text-align:left;background-color: white !important;"> </td> <td style="text-align:left;background-color: white !important;"> 50 </td> </tr> <tr> <td style="text-align:left;background-color: white !important;"> Wednesday Code Reviews </td> <td style="text-align:left;background-color: white !important;"> </td> <td style="text-align:left;background-color: white !important;"> 12x10 </td> </tr> <tr> <td style="text-align:left;background-color: white !important;"> Phase I Projects </td> <td style="text-align:left;background-color: white !important;"> </td> <td style="text-align:left;background-color: white !important;"> 4x25 </td> </tr> <tr> <td style="text-align:left;background-color: white !important;"> Phase II Projects </td> <td style="text-align:left;background-color: white !important;"> </td> <td style="text-align:left;background-color: white !important;"> 3x50 </td> </tr> <tr> <td style="text-align:left;background-color: white !important;"> Phasee III/Final Project </td> <td style="text-align:left;background-color: white !important;"> </td> <td style="text-align:left;background-color: white !important;"> 1x150 </td> </tr> <tr> <td style="text-align:left;background-color: white !important;"> </td> <td style="text-align:left;background-color: white !important;"> total </td> <td style="text-align:left;background-color: white !important;"> 500 </td> </tr> </tbody> </table> --- # Course requirements .pull-left[ Hard stuff: - Personal computer Soft stuff: - [GitHub account](https://github.com/join) - [R](https://www.r-project.org/) installed - [R Studio IDE](https://www.rstudio.com/) installed ] .pull-right[   ] --- class: top # Class structure .pull-left[ - Semi-flipped (a little lecturing: talk/discuss here, learn/conquer out there) - Lectures are discussion based and project focused - In class code reviews (graded) - You lead! - Team-based projects - Teams assigned randomly ] .pull-right[  ] --- class: top # Teams and team responsibilities - Teams of 3 students assigned in the first few days of class. This team must establish two things: 1. Pick a team nickname. Puns are welcome and encouraged (e.g., "R-tful Coders") 2. Have a single team member create a github repository titled ProjectNumber_TeamNumber, e.g., "Project2_Team2" (directions [here](https://docs.github.com/en/repositories/creating-and-managing-repositories/creating-a-new-repository)). Note: only one person in the team should create a project repo. 4. Add Professor Kenaley (@ckenaley) and other team members as collaborator to this repository (directions [here](https://docs.github.com/en/account-and-profile/setting-up-and-managing-your-personal-account-on-github/managing-access-to-your-personal-repositories/inviting-collaborators-to-a-personal-repository)) 5. A team representative must submit a question to our [discussion board](https://github.com/orgs/bcorgbio/discussions) and include the team handle in the question title. 6. A team representative must answer a question on the discussion board and include the team handle in the response. --- class: top # Course Outline .center[  ] .pull-left[ ## Phase I - Learning the basics - Small projects - [Peer evaluations](peer_contributions.htmls) - Commit to team repo on GitHub ] .pull-right[ ## Phase II projects - Project descriptions on [course site](https://bcorgbio.github.io/class/index.html) - 2-3 weeks to finish - Reports due on Sundays - Report written in R Markdown - Commit to team repo on GitHub - Peer evaluations ] --- class: top # Phase III/Final project .pull-left[ ## Overview - Team-based - Topic of your choice (build off of Phase II) - Same report guidelines as Phase II (.Rmd, format, etc.,peer evalutions) ] .pull-right[ ## Timeline - ~2 weeks to develop, execute - Start end of November - Commit to team repo on GitHub ] --- class: top # Phase II topics .pull-left[ - Evolution of head shape in ray-finned fishes. - Spatial analysis of species occurences. - Migration phenology of neotropical migrants in New England ] .pull-right[  ] --- class: top # Phase II topics .pull-left[ - Evolution of head shape in ray-finned fishes. - Spatial analysis of species occurances. - Migration phenology of neotropical migrants in New England ] .pull-right[  ] --- class: top # Phase II topics .pull-left[ - Evolution of head shape in ray-finned fishes. - Spatial analysis of species occurances. - Migration phenology of neotropical migrants in New England ] .pull-right[  ] --- class: top # Phase III topics .pull-left[ - New Englang shark occurences and SST. - *Phylogenetic signal* in migration phenology of neotropical migrants in New England ] .pull-right[   ] --- class: top # Wednesday Code Reviews (WCRs) .pull-left[ - In class - Posted on [class calendar](https://bcorgbio.github.io/class/at_a_glance.html) - Submit over google forms - 12x10 pts (2 lowest dropped) ] .pull-right[  ] --- class: center, middle # Thanks! Slides created via the R package [**xaringan**](https://github.com/yihui/xaringan).