SQLNotebook

R Markdown documents are fully reproducible. Use a productive notebook interface to weave together narrative text and code to produce elegantly formatted output. Use multiple languages including R, Python, and SQL. R Markdown supports dozens of static and dynamic output formats including HTML, PDF, MS Word, Beamer, HTML5 slides, Tufte-style handouts, books, dashboards, shiny applications, scientific articles, websites, and more. R Markdown provides an authoring framework for data science. You can use a single R Markdown file to both. When you open the file in the RStudio IDE, it becomes a notebook interface for R. You can run each code chunk by clicking the icon. RStudio executes the code and display the results inline with your file.

Joplin is a free, open source note taking and to-do application, which can handle a large number of notes organized into notebooks. The notes are searchable, can be copied, tagged and modified either from the applications directly or from your own text editor. The notes are in Markdown format. Notes exported from Evernote via .enex files can be imported into Joplin, including the formatted content (which is converted to Markdown), resources (images, attachments, etc.) and complete metadata (geolocation, updated time, created time, etc.). Plain Markdown files can also be imported. The notes can be synchronized with various cloud services including Nextcloud, Dropbox, OneDrive, WebDAV or the file system (for example with a network directory). When synchronising the notes, notebooks, tags and other metadata are saved to plain text files which can be easily inspected, backed up and moved around. The application is available for Windows, Linux, macOS, Android and iOS.