Home

Last updated: 2020-09-24

Checks: 1 1

Knit directory: R_gene_analysis/

This reproducible R Markdown analysis was created with workflowr (version 1.6.2.9000). 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: 1b346e9

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 1b346e9. 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/

Untracked files:
    Untracked:  analysis/gwas.Rmd
    Untracked:  analysis/phylo.Rmd
    Untracked:  analysis/yield_link.Rmd
    Untracked:  code/transformToGAPIT.py
    Untracked:  data/Brec_R1.txt
    Untracked:  data/Brec_R2.txt
    Untracked:  data/CR15_R1.txt
    Untracked:  data/CR15_R2.txt
    Untracked:  data/CR_14_R1.txt
    Untracked:  data/CR_14_R2.txt
    Untracked:  data/KS_R1.txt
    Untracked:  data/KS_R2.txt
    Untracked:  data/NBS_PAV.txt.gz
    Untracked:  data/NLR_PAV_GD.txt
    Untracked:  data/NLR_PAV_GM.txt
    Untracked:  data/PPR1.txt
    Untracked:  data/PPR2.txt
    Untracked:  data/bac.txt
    Untracked:  data/brown.txt
    Untracked:  data/cy3.txt
    Untracked:  data/cy5.txt
    Untracked:  data/early.txt
    Untracked:  data/flowerings.txt
    Untracked:  data/foregeye.txt
    Untracked:  data/height.txt
    Untracked:  data/late.txt
    Untracked:  data/mature.txt
    Untracked:  data/motting.txt
    Untracked:  data/oil.txt
    Untracked:  data/pdh.txt
    Untracked:  data/protein.txt
    Untracked:  data/rust_tan.txt
    Untracked:  data/salt.txt
    Untracked:  data/seedq.txt
    Untracked:  data/seedweight.txt
    Untracked:  data/stem_termination.txt
    Untracked:  data/sudden.txt
    Untracked:  data/virus.txt
    Untracked:  data/yield.txt
    Untracked:  output/GAPIT/

Unstaged changes:
    Modified:   README.md
    Modified:   analysis/index.Rmd
    Modified:   analysis/total_numbers.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	1b346e9	Philipp Bayer	2020-09-22	More data!
html	1b346e9	Philipp Bayer	2020-09-22	More data!
html	0777e1d	Philipp Bayer	2020-09-22	update
Rmd	3adcc5a	Philipp Bayer	2020-09-22	wflow_git_commit(all = TRUE)
html	e6e9b9b	Philipp Bayer	2020-09-21	Build site.
Rmd	c71005a	Philipp Bayer	2020-09-18	lots changes
html	c71005a	Philipp Bayer	2020-09-18	lots changes
html	7d33bac	Philipp Bayer	2020-09-18	Build site.
Rmd	695db1e	Philipp Bayer	2020-09-18	wflow_publish(c(“analysis/eda.Rmd”, “analysis/first-analysis.Rmd”,
html	ca65f66	Philipp Bayer	2020-09-18	Build site.
Rmd	efd6af1	Philipp Bayer	2020-09-18	wflow_git_commit(all = T)
html	efd6af1	Philipp Bayer	2020-09-18	wflow_git_commit(all = T)
Rmd	7b1cd32	Philipp Bayer	2020-09-17	wflow_git_commit(all = T)
Rmd	8a6560a	Philipp Bayer	2020-09-17	Start workflowr project.