Last updated: 2018-11-07

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• ✔ 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: 1c178af

  Great! You are using Git for version control. Tracking code development and connecting the code version to the results is critical for reproducibility. The version displayed above was the version of the Git repository at the time these results were generated.
  
  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:    output/monocle/
  
  Unstaged changes:
      Modified:   plots/180504_alignment.pdf
      Modified:   plots/180504_monocle_noreg-ccreg.pdf
      Modified:   plots/180504_pca_tsne.pdf
      Modified:   plots/supplementary_figures/sfig_180504_alignment-discardedcells.pdf
      Modified:   plots/supplementary_figures/sfig_180504_biweightplots.pdf
      Modified:   plots/supplementary_figures/sfig_180504_monocle.pdf
      Modified:   plots/supplementary_figures/sfig_180504_pcelbow.pdf
      Modified:   plots/supplementary_figures/sfig_180504_qcplots.pdf
  
  

  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.

Expand here to see past versions:

File	Version	Author	Date	Message
html	8c816d4	PytrikFolkertsma	2018-11-07	Build site.
html	4b12f43	PytrikFolkertsma	2018-11-05	Build site.
Rmd	f6e9077	PytrikFolkertsma	2018-11-05	wflow_publish(c(“analysis/10x-180504-beforeQC.Rmd”, “analysis/index.Rmd”))
html	9e51a0a	PytrikFolkertsma	2018-11-02	Build site.
html	cc9ed00	PytrikFolkertsma	2018-11-02	Build site.
Rmd	d7744be	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	0eee1c4	PytrikFolkertsma	2018-11-02	Build site.
Rmd	bbcb1c5	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	4f5e908	PytrikFolkertsma	2018-11-02	Build site.
Rmd	b2747c4	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	2b95cbd	PytrikFolkertsma	2018-11-02	Build site.
Rmd	a70776e	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	d6ccbf9	PytrikFolkertsma	2018-11-02	Build site.
Rmd	5ef5a54	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	77f0cd0	PytrikFolkertsma	2018-11-02	Build site.
Rmd	ad3b515	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	b20b10d	PytrikFolkertsma	2018-11-02	Build site.
Rmd	7f1e2a3	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	a58d589	PytrikFolkertsma	2018-11-02	Build site.
Rmd	9faddbb	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	f378262	PytrikFolkertsma	2018-11-02	Build site.
html	4d75489	PytrikFolkertsma	2018-11-02	Build site.
Rmd	032862e	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	ca069c3	PytrikFolkertsma	2018-11-02	notebooks + index
html	cb4228f	PytrikFolkertsma	2018-11-02	Build site.
Rmd	e39c768	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	a4453ec	PytrikFolkertsma	2018-11-02	Build site.
Rmd	52e9177	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	b5866be	PytrikFolkertsma	2018-11-02	Build site.
Rmd	42be16c	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	17b0321	PytrikFolkertsma	2018-11-02	Build site.
Rmd	20adbe0	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	91f2c9c	PytrikFolkertsma	2018-11-02	Build site.
Rmd	f8fe591	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	eaa7e4a	PytrikFolkertsma	2018-11-02	Build site.
Rmd	120215c	PytrikFolkertsma	2018-11-02	general analysis + alignment
html	d810265	PytrikFolkertsma	2018-10-31	Build site.
html	57c44d6	PytrikFolkertsma	2018-10-31	Build site.
html	1f7e0da	PytrikFolkertsma	2018-10-30	Build site.
html	3395a74	PytrikFolkertsma	2018-10-26	first commit
Rmd	cf98ea8	PytrikFolkertsma	2018-10-26	Start workflowr project.

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Notebooks for 180504 analysis:

1. Before QC
2. General analysis
3. Alignment
4. Monocle analysis

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This reproducible R Markdown analysis was created with workflowr 1.1.1

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