WrapRmd
workflowr
| WrapRmd | workflowr | |
|---|---|---|
| 1 | 2 | |
| 101 | 810 | |
| - | 1.2% | |
| 3.4 | 5.4 | |
| 3 months ago | 3 months ago | |
| R | R | |
| GNU General Public License v3.0 or later | GNU General Public License v3.0 or later |
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
WrapRmd
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curious about settings for a writer
That said, I don't use the visual editor, and I wrote my own RStudio addin for wrapping Rmarkdown text. I also made my own Word document template to use solarized highlighting with tweaks for the R syntax highlighting rules.
workflowr
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How do you manage results, plots, etc.?
I would start by saying "bioinformatics world" is a very broad term. Most of it does not involve managing multiple models, which is what MLflow seems to be for. Most work is cleaning the data and interpreting the results, which is highly project-specific. Something like workflowr is generally more appropriate, but even that is an overkill for most people.
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Restructuring a large R project. Need advice on how to wire up file paths and associated objects.
Targets stores all your data serialised on disk, and only loads them in as needed by the dependencies. For a standardised folder structure, you can take inspiration from workflowr.
What are some alternatives?
dotnet - 'knitr' Engine for C# and F# Languages and R Wrapper for 'dotnet' Command Line Interface
targets - Function-oriented Make-like declarative workflows for R
box - Write reusable, composable and modular R code
targets-minimal - A minimal example data analysis project with the targets R package
blogdown - Create Blogs and Websites with R Markdown
reprex - Render bits of R code for sharing, e.g., on GitHub or StackOverflow.
data-science-development-project-template - A logical, reasonably standardized, but flexible project structure for doing and sharing data science research work while developing a software tool.
webR-quarto-demos - Experiments with generating a standalone Quarto Document using Web R
namer - R package :package: for labelling chunks of RMarkdown files! :boom: