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Last updated: 2021-11-11

Checks: 2 0

Knit directory: Multispectral HCC/

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: e98088d

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 e98088d. 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:    NMF_26ce5dfd0cab/
    Ignored:    analysis/.DS_Store
    Ignored:    code/
    Ignored:    data/
    Ignored:    old/
    Ignored:    output/.DS_Store
    Ignored:    output/tumor.hc.nmf.rank.1.rds
    Ignored:    output/tumor.hc.nmf.rank.10.rds
    Ignored:    output/tumor.hc.umap.rds

Untracked files:
    Untracked:  core_cluster_fractions.pdf
    Untracked:  output/cores_3/11_18529_T_HCC1_Core[1,11,M]_[61473,19738].im3.png
    Untracked:  output/cores_3/12_291_T_HCC1_Core[1,5,K]_[58929,10236].im3.png
    Untracked:  output/cores_3/13_372_T_HCC1_Core[1,3,A]_[45443,7020].im3.png

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	e98088d	Jovan Tanevski	2021-11-11	core analysis of all hepatocytes for one core per patient
html	19338d9	Jovan Tanevski	2021-10-28	Build site.
Rmd	1c9b86c	Jovan Tanevski	2021-10-28	update index
html	515f7e6	Jovan Tanevski	2021-10-28	Build site.
html	434cb0d	Jovan Tanevski	2021-10-27	Build site.
html	668b155	Jovan Tanevski	2021-10-27	Build site.
Rmd	a56dc0c	Jovan Tanevski	2021-10-27	remove beta-cat, add cores 3 and 4 clusters
html	68cbc32	Jovan Tanevski	2021-10-08	Build site.
Rmd	db035f5	Jovan Tanevski	2021-10-08	add misty analysis on tumor hepatocytes
html	c85e3e6	Jovan Tanevski	2021-09-17	Build site.
Rmd	825c1f2	Jovan Tanevski	2021-09-17	pilot run on 1% of hepatocytes from tumor cores
html	e7709fe	Jovan Tanevski	2021-08-03	Build site.
html	a386eaa	Jovan Tanevski	2021-07-28	Build site.
Rmd	9ab4acc	Jovan Tanevski	2021-07-28	Build site.
html	d73f586	Jovan Tanevski	2021-07-28	Build site.
html	0bfae68	Jovan Tanevski	2021-07-28	Build site.
html	5043687	Jovan Tanevski	2021-07-28	Build site.
Rmd	0e0c4d5	Jovan Tanevski	2021-07-28	add placeholder content
Rmd	4cd934b	Jovan Tanevski	2021-07-28	Start workflowr project.

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