Last updated: 2024-07-04
Checks: 2 0
Knit directory: KODAMA-Analysis/
This reproducible R Markdown analysis was created with workflowr (version 1.7.1). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.
Great! Since the R Markdown file has been committed to the Git repository, you know the exact version of the code that produced these results.
Great! You are using Git for version control. Tracking code development and connecting the code version to the results is critical for reproducibility.
The results in this page were generated with repository version 62ada19. See the Past versions tab to see a history of the changes made to the R Markdown and HTML files.
Note that you need to be careful to ensure that all relevant files for
the analysis have been committed to Git prior to generating the results
(you can use wflow_publish
or
wflow_git_commit
). workflowr only checks the R Markdown
file, but you know if there are other scripts or data files that it
depends on. Below is the status of the Git repository when the results
were generated:
Unstaged changes:
Deleted: .DS_Store
Deleted: KODAMA-Analysis.Rproj
Modified: MERFISH.Rmd
Deleted: README.md
Deleted: _workflowr.yml
Deleted: analysis/DLPFC.Rmd
Deleted: analysis/MERFISH.Rmd
Deleted: analysis/Prostate.Rmd
Deleted: analysis/STARmap.Rmd
Deleted: analysis/VisiumHD.Rmd
Deleted: analysis/_site.yml
Deleted: analysis/about.Rmd
Deleted: analysis/index.Rmd
Deleted: analysis/license.Rmd
Deleted: analysis/simulation.Rmd
Deleted: code/Prostate_download.sh
Deleted: code/Prostate_preprocessing.R
Deleted: code/README.md
Deleted: data/.gitattributes
Deleted: data/Moffitt_and_Bambah-Mukku_et_al_merfish_all_cells.csv
Deleted: data/Prostate_data.RData
Deleted: data/README.md
Deleted: data/merfish.Rmd
Deleted: data/vis.R
Deleted: docs/.DS_Store
Deleted: docs/.nojekyll
Deleted: docs/DLPFC.html
Deleted: docs/MERFISH.html
Deleted: docs/Prostate.html
Deleted: docs/STARmap.html
Deleted: docs/VisiumHD.html
Deleted: docs/about.html
Deleted: docs/figure/MERFISH.Rmd/unnamed-chunk-5-1.png
Deleted: docs/figure/MERFISH.Rmd/unnamed-chunk-5-2.png
Deleted: docs/figure/Prostate.Rmd/unnamed-chunk-1-1.png
Deleted: docs/figure/simulation.Rmd/unnamed-chunk-1-1.png
Deleted: docs/figure/simulation.Rmd/unnamed-chunk-2-1.png
Deleted: docs/index.html
Deleted: docs/license.html
Deleted: docs/simulation.html
Deleted: docs/site_libs/bootstrap-3.3.5/css/bootstrap-theme.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/bootstrap-theme.css.map
Deleted: docs/site_libs/bootstrap-3.3.5/css/bootstrap-theme.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/bootstrap.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/bootstrap.css.map
Deleted: docs/site_libs/bootstrap-3.3.5/css/bootstrap.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/cerulean.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/cosmo.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/darkly.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/flatly.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/Lato.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/LatoBold.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/LatoItalic.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/NewsCycle.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/NewsCycleBold.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/OpenSans.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/OpenSansBold.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/OpenSansBoldItalic.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/OpenSansItalic.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/OpenSansLight.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/OpenSansLightItalic.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/Raleway.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/RalewayBold.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/Roboto.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/RobotoBold.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/RobotoLight.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/RobotoMedium.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/SourceSansPro.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/SourceSansProBold.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/SourceSansProItalic.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/SourceSansProLight.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/fonts/Ubuntu.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/css/journal.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/lumen.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/paper.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/readable.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/sandstone.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/simplex.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/spacelab.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/united.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/css/yeti.min.css
Deleted: docs/site_libs/bootstrap-3.3.5/fonts/glyphicons-halflings-regular.eot
Deleted: docs/site_libs/bootstrap-3.3.5/fonts/glyphicons-halflings-regular.svg
Deleted: docs/site_libs/bootstrap-3.3.5/fonts/glyphicons-halflings-regular.ttf
Deleted: docs/site_libs/bootstrap-3.3.5/fonts/glyphicons-halflings-regular.woff
Deleted: docs/site_libs/bootstrap-3.3.5/fonts/glyphicons-halflings-regular.woff2
Deleted: docs/site_libs/bootstrap-3.3.5/js/bootstrap.js
Deleted: docs/site_libs/bootstrap-3.3.5/js/bootstrap.min.js
Deleted: docs/site_libs/bootstrap-3.3.5/js/npm.js
Deleted: docs/site_libs/bootstrap-3.3.5/shim/html5shiv.min.js
Deleted: docs/site_libs/bootstrap-3.3.5/shim/respond.min.js
Deleted: docs/site_libs/font-awesome-6.4.2/css/all.css
Deleted: docs/site_libs/font-awesome-6.4.2/css/all.min.css
Deleted: docs/site_libs/font-awesome-6.4.2/css/v4-shims.css
Deleted: docs/site_libs/font-awesome-6.4.2/css/v4-shims.min.css
Deleted: docs/site_libs/font-awesome-6.4.2/webfonts/fa-brands-400.ttf
Deleted: docs/site_libs/font-awesome-6.4.2/webfonts/fa-brands-400.woff2
Deleted: docs/site_libs/font-awesome-6.4.2/webfonts/fa-regular-400.ttf
Deleted: docs/site_libs/font-awesome-6.4.2/webfonts/fa-regular-400.woff2
Deleted: docs/site_libs/font-awesome-6.4.2/webfonts/fa-solid-900.ttf
Deleted: docs/site_libs/font-awesome-6.4.2/webfonts/fa-solid-900.woff2
Deleted: docs/site_libs/font-awesome-6.4.2/webfonts/fa-v4compatibility.ttf
Deleted: docs/site_libs/font-awesome-6.4.2/webfonts/fa-v4compatibility.woff2
Deleted: docs/site_libs/header-attrs-2.26/header-attrs.js
Deleted: docs/site_libs/header-attrs-2.27/header-attrs.js
Deleted: docs/site_libs/highlightjs-9.12.0/default.css
Deleted: docs/site_libs/highlightjs-9.12.0/highlight.js
Deleted: docs/site_libs/highlightjs-9.12.0/textmate.css
Deleted: docs/site_libs/jquery-3.6.0/jquery-3.6.0.js
Deleted: docs/site_libs/jquery-3.6.0/jquery-3.6.0.min.js
Deleted: docs/site_libs/jquery-3.6.0/jquery-3.6.0.min.map
Deleted: docs/site_libs/jqueryui-1.13.2/AUTHORS.txt
Deleted: docs/site_libs/jqueryui-1.13.2/LICENSE.txt
Deleted: docs/site_libs/jqueryui-1.13.2/images/ui-icons_444444_256x240.png
Deleted: docs/site_libs/jqueryui-1.13.2/images/ui-icons_555555_256x240.png
Deleted: docs/site_libs/jqueryui-1.13.2/images/ui-icons_777620_256x240.png
Deleted: docs/site_libs/jqueryui-1.13.2/images/ui-icons_777777_256x240.png
Deleted: docs/site_libs/jqueryui-1.13.2/images/ui-icons_cc0000_256x240.png
Deleted: docs/site_libs/jqueryui-1.13.2/images/ui-icons_ffffff_256x240.png
Deleted: docs/site_libs/jqueryui-1.13.2/index.html
Deleted: docs/site_libs/jqueryui-1.13.2/jquery-ui.css
Deleted: docs/site_libs/jqueryui-1.13.2/jquery-ui.js
Deleted: docs/site_libs/jqueryui-1.13.2/jquery-ui.min.css
Deleted: docs/site_libs/jqueryui-1.13.2/jquery-ui.min.js
Deleted: docs/site_libs/jqueryui-1.13.2/jquery-ui.structure.css
Deleted: docs/site_libs/jqueryui-1.13.2/jquery-ui.structure.min.css
Deleted: docs/site_libs/jqueryui-1.13.2/jquery-ui.theme.css
Deleted: docs/site_libs/jqueryui-1.13.2/jquery-ui.theme.min.css
Deleted: docs/site_libs/navigation-1.1/codefolding-lua.css
Deleted: docs/site_libs/navigation-1.1/codefolding.js
Deleted: docs/site_libs/navigation-1.1/sourceembed.js
Deleted: docs/site_libs/navigation-1.1/tabsets.js
Deleted: docs/site_libs/tocify-1.9.1/jquery.tocify.css
Deleted: docs/site_libs/tocify-1.9.1/jquery.tocify.js
Deleted: output/README.md
Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.
These are the previous versions of the repository in which changes were
made to the R Markdown (index.Rmd
) and HTML
(../docs/index.html
) files. If you’ve configured a remote
Git repository (see ?wflow_git_remote
), click on the
hyperlinks in the table below to view the files as they were in that
past version.
File | Version | Author | Date | Message |
---|---|---|---|---|
Rmd | 62ada19 | Stefano Cacciatore | 2024-07-04 | Ajout des fichiers rmd, html, yml, etc. |
Welcome to my research website.