Last updated: 2020-05-07

Checks: 2 0

Knit directory: MINTIE-paper-analysis/

This reproducible R Markdown analysis was created with workflowr (version 1.6.1). 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: up-to-date

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.

Repository version: 0fde0b8

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 0fde0b8. 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:    .DS_Store
    Ignored:    .Rhistory
    Ignored:    .Rproj.user/
    Ignored:    analysis/.DS_Store
    Ignored:    analysis/cache/
    Ignored:    data/.DS_Store
    Ignored:    data/RCH_B-ALL/
    Ignored:    data/leucegene/.DS_Store
    Ignored:    data/leucegene/KMT2A-PTD_results/.DS_Store
    Ignored:    data/leucegene/normals_controls_test_results/.DS_Store
    Ignored:    data/leucegene/salmon_out/
    Ignored:    data/leucegene/sample_info/KMT2A-PTD_8-2.fa.xls
    Ignored:    data/simu/.DS_Store
    Ignored:    output/Leucegene_gene_counts.tsv

Untracked files:
    Untracked:  data/ref/ALL_associated_genes.txt

Unstaged changes:
    Modified:   .gitignore
    Modified:   analysis/_site.yml

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/license.Rmd) and HTML (docs/license.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
html 5c045b5 Marek Cmero 2020-05-07 Build site.
html 90c7fd9 Marek Cmero 2020-05-06 Build site.
html 358aa53 Marek Cmero 2020-05-04 Build site.
html 4a5d6ae Marek Cmero 2020-05-01 Build site.
html 784838b Marek Cmero 2020-04-30 Build site.
html 663689c Marek Cmero 2020-04-23 Build site.
html e57763b Marek Cmero 2020-04-23 Initial commit
Rmd 9f95a7c Marek Cmero 2020-04-15 Start workflowr project.

What license are you using for your code? See choosealicense.com for help deciding. It’s a convention to save a file LICENSE in the root of your Git repo that contains the license text.

What license are you using for the written content on your site? It is traditional to choose a Creative Commons license for this type of content.

How should others cite your work? It’s a convention to save a file CITATION in the root of your Git repo that contains the citation information.