namer
workflowr
| namer | workflowr | |
|---|---|---|
| 1 | 2 | |
| 94 | 807 | |
| - | 0.9% | |
| 3.4 | 5.4 | |
| about 2 months ago | 2 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.
namer
-
[package - anomia] Give your R Markdown chunks a name
There is already a package that does this sort of thing called namer, but it hasn't been updated in a while (doesn't really need to be), and isn't as flexible as I'd like. My package let's you put the naming pattern in the YML header and then just use the RStudio addin.
workflowr
-
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.
-
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?
rmarkdown - Dynamic Documents for R
targets - Function-oriented Make-like declarative workflows for R
timevis - 📅 Create interactive timeline visualizations in R
box - Write reusable, composable and modular R code
r-anomia - Give your code blocks a name
targets-minimal - A minimal example data analysis project with the targets R package
reprex - Render bits of R code for sharing, e.g., on GitHub or StackOverflow.
blogdown - Create Blogs and Websites with R Markdown
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