Last updated: 2021-02-07

Checks: 1 1

Knit directory: hesc-epigenomics/

This reproducible R Markdown analysis was created with workflowr (version 1.6.2). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.

R Markdown file: uncommitted changes

The R Markdown file has unstaged changes. To know which version of the R Markdown file created these results, you’ll want to first commit it to the Git repo. If you’re still working on the analysis, you can ignore this warning. When you’re finished, you can run wflow_publish to commit the R Markdown file and build the HTML.

Repository version: 62bc72d

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 62bc72d. 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: 


Ignored files:
    Ignored:    .Rhistory
    Ignored:    .Rproj.user/
    Ignored:    data/bed/
    Ignored:    data/bw
    Ignored:    data/meta/
    Ignored:    data/peaks
    Ignored:    data/rnaseq/

Untracked files:
    Untracked:  analysis/gene_expression_groups.Rmd

Unstaged changes:
    Modified:   analysis/index.Rmd

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 (analysis/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 0481b52 cnluzon 2021-02-05 RNA seq first analysis
html 0481b52 cnluzon 2021-02-05 RNA seq first analysis
Rmd 87ff15f cnluzon 2021-02-05 Renamed read counts file
html 87ff15f cnluzon 2021-02-05 Renamed read counts file
html 7cafaa1 cnluzon 2021-02-03 Build site.
Rmd 930c015 cnluzon 2021-02-03 wflow_publish(“analysis/”)
html 331f00c cnluzon 2021-02-03 Build site.
Rmd 04408d2 cnluzon 2021-02-03 Global read counts
Rmd 897ecf5 cnluzon 2021-02-02 wflow_git_commit(all = TRUE)
Rmd 407fa20 cnluzon 2021-02-02 Start workflowr project.

Supplementary code and analysis for publication.

Analyses: