workflowr
Organize your project into a research website (by workflowr)
projects
Various research projects (by jolespin)
| workflowr | projects | |
|---|---|---|
| 2 | 2 | |
| 807 | 6 | |
| 0.9% | - | |
| 5.4 | 3.6 | |
| 2 months ago | over 2 years ago | |
| R | Jupyter Notebook | |
| GNU General Public License v3.0 or later | - |
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
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.
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.
workflowr
Posts with mentions or reviews of workflowr.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-11-17.
-
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.
projects
Posts with mentions or reviews of projects.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-11-17.
-
How do you manage results, plots, etc.?
Here’s an example of the organization structure in my antibiotic discovery study: https://github.com/jolespin/projects/blob/main/antimicrobial_resistance_modeling/Espinoza-Dupont_et_al_2021/Notebooks/markdown_version/Espinoza-Dupont_et_al_2021__Supplemental.md
- Matplotlib sucks
What are some alternatives?
When comparing workflowr and projects you can also consider the following projects:
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
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
namer - R package :package: for labelling chunks of RMarkdown files! :boom: