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Last updated: 2021-09-09

Checks: 2 0

Knit directory: mistyMBC/

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: 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: 3de951e

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 3de951e. 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/.Rhistory
    Ignored:    code/
    Ignored:    data/
    Ignored:    omnipathr-log/
    Ignored:    output/.DS_Store
    Ignored:    output/HTAPP-213-SMP-6752/.DS_Store
    Ignored:    output/HTAPP-213-SMP-6752/HTAPP-213-SMP-6752_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-213-SMP-6752/HTAPP-213-SMP-6752_slide_seq_processed-2/.DS_Store
    Ignored:    output/HTAPP-313-SMP-932/.DS_Store
    Ignored:    output/HTAPP-313-SMP-932/HTAPP-313-SMP-932_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-313-SMP-932/HTAPP-313-SMP-932_slide_seq_processed-2/.DS_Store
    Ignored:    output/HTAPP-330-SMP-1082/.DS_Store
    Ignored:    output/HTAPP-330-SMP-1082/HTAPP-330-SMP-1082_slide_seq_processed-2/.DS_Store
    Ignored:    output/HTAPP-364-SMP-1321/.DS_Store
    Ignored:    output/HTAPP-514-SMP-6760/.DS_Store
    Ignored:    output/HTAPP-514-SMP-6760/HTAPP-514-SMP-6760_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-514-SMP-6760/HTAPP-514-SMP-6760_slide_seq_processed-2/.DS_Store
    Ignored:    output/HTAPP-783-SMP-4081/.DS_Store
    Ignored:    output/HTAPP-783-SMP-4081/HTAPP-783-SMP-4081_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-783-SMP-4081/HTAPP-783-SMP-4081_slide_seq_processed-2/.DS_Store
    Ignored:    output/HTAPP-812-SMP-8239/.DS_Store
    Ignored:    output/HTAPP-812-SMP-8239/HTAPP-812-SMP-8239_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-812-SMP-8239/HTAPP-812-SMP-8239_slide_seq_processed-2/.DS_Store
    Ignored:    output/HTAPP-853-SMP-4381/.DS_Store
    Ignored:    output/HTAPP-853-SMP-4381/HTAPP-853-SMP-4381_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-853-SMP-4381/HTAPP-853-SMP-4381_slide_seq_processed-2/.DS_Store
    Ignored:    output/HTAPP-878-SMP-7149/.DS_Store
    Ignored:    output/HTAPP-878-SMP-7149/HTAPP-878-SMP-7149_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-878-SMP-7149/HTAPP-878-SMP-7149_slide_seq_processed-2/.DS_Store
    Ignored:    output/HTAPP-880-SMP-7179/.DS_Store
    Ignored:    output/HTAPP-880-SMP-7179/HTAPP-880-SMP-7179_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-880-SMP-7179/HTAPP-880-SMP-7179_slide_seq_processed-2/.DS_Store
    Ignored:    output/HTAPP-895-SMP-7359/.DS_Store
    Ignored:    output/HTAPP-895-SMP-7359/HTAPP-895-SMP-7359_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-917-SMP-4531/.DS_Store
    Ignored:    output/HTAPP-917-SMP-4531/HTAPP-917-SMP-4531_slide_seq_processed-2/.DS_Store
    Ignored:    output/HTAPP-944-SMP-7479/.DS_Store
    Ignored:    output/HTAPP-944-SMP-7479/HTAPP-944-SMP-7479_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-982-SMP-7629/.DS_Store
    Ignored:    output/HTAPP-982-SMP-7629/HTAPP-982-SMP-7629_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-997-SMP-7789/.DS_Store
    Ignored:    output/HTAPP-997-SMP-7789/HTAPP-997-SMP-7789_slide_seq_processed-1/.DS_Store
    Ignored:    output/HTAPP-997-SMP-7789/HTAPP-997-SMP-7789_slide_seq_processed-2/.DS_Store

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
html	aa6ca6b	Jovan Tanevski	2021-09-09	Build site.
html	2438eb2	Jovan Tanevski	2021-09-09	Build site.
html	e0c1952	Jovan Tanevski	2021-07-22	Build site.
Rmd	3e63dcc	Jovan Tanevski	2021-07-22	use normalized hvg, add ligand-pathway pipeline
html	4dd6a02	Jovan Tanevski	2021-07-14	Build site.
Rmd	125da67	Jovan Tanevski	2021-07-14	add slideseq cellcomm pipeline and outputs
html	125da67	Jovan Tanevski	2021-07-14	add slideseq cellcomm pipeline and outputs
html	913535e	Jovan Tanevski	2021-06-17	Build site.
html	1b68c27	Jovan Tanevski	2021-06-15	Build site.
html	e445e6f	Jovan Tanevski	2021-06-11	Build site.
Rmd	abca833	Jovan Tanevski	2021-06-11	temporarily parametrize simple_misty
Rmd	f532a05	Jovan Tanevski	2021-06-10	generalize analysis
html	56bbb48	Jovan Tanevski	2021-06-10	Build site.
Rmd	eb056ff	Jovan Tanevski	2021-06-10	add simple misty analysis
Rmd	7ad759f	Jovan Tanevski	2021-06-09	Start workflowr project.

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