Organize, document and share research data and codes using Emerson Del Ponte Prof. of Plant Pathology Editor in Chief TPP Co-founder OPP Prepared for: Re:produce workshop Session 5: Open data, materials and code 11 Dec 2019
Data wrangling - Excel Data visualization - Excel Data analysis - SAS, STATA Scientific plots - SigmaPlot Text editor - MSWord BIB Save money! Use R and Friends
Creation of RC project templates Manually (DIY) Semi-automated Automated "The workflowr R package helps researchers organize their analyses in a way that promotes effective project management, reproducibility, collaboration, and sharing of results" https://github.com/jdblischak/workflowr
Automating RC website creation Organized ● Provides a project template with organized subdirectories ● Mixes code and results with R Markdown Reproducible ● Displays the code version used to create each result ● Runs each analysis in an isolated R session ○ Records the session information of each analysis ○ Sets the same seed for random number generation for each analysis Shareable ○ Creates a website to present your research results ○ Documents how to host your website for free via GitHub Pages or GitLab Pages ○ Creates links to past versions of results https://jdblischak.github.io/workflowr
Reproducible for future? "holepunch will read the contents of your R project on GitHub... write a Dockerfile, add a badge to your README, and build a Docker image. .. dropped into a free, live, RStudio server.." https://karthik.github.io/holepunch/