Last updated: 2018-05-09

workflowr checks: (Click a bullet for more information)

• ✖ 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: 5f12007

  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:    .Rhistory
      Ignored:    .Rproj.user/
  
  Untracked files:
      Untracked:  _workflowr.yml
  
  Unstaged changes:
      Modified:   analysis/_site.yml
      Modified:   analysis/about.Rmd
      Deleted:    analysis/chunks.R
      Modified:   analysis/index.Rmd
      Modified:   analysis/license.Rmd
      Modified:   analysis/total.nuc.rnaseq.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.

Expand here to see past versions:

File	Version	Author	Date	Message
html	3dd80ef	Briana Mittleman	2018-05-08	Build site.
Rmd	519447d	Briana Mittleman	2018-05-08	Add total.nuc.rnaseq analysis
html	889c9c6	Briana Mittleman	2018-05-02	Build site.
html	9d196cf	Briana Mittleman	2018-05-02	Build site.
html	972ef3e	Briana Mittleman	2018-05-02	Build site.
Rmd	6cc5321	Briana Mittleman	2018-05-02	add home page information
html	e12dd6c	Briana Mittleman	2018-05-01	Build site.
Rmd	0e95115	Briana Mittleman	2018-05-01	add home page information
html	4c26d4c	Briana Mittleman	2018-05-01	Build site.
Rmd	539892a	Briana Mittleman	2018-05-01	Start workflowr project.

---

Briana Mittleman

This is the site I will use for my human 3’ seq project. I will have my workflow and analysis here. The three prime seq protocol I am using is Lexogen, QuantSeq 3’ mRNA-Seq library kit. The first analysis will be on the total and nucleic fractions of the LCL used in the net-seq analysis found at https://brimittleman.github.io/Net-seq/

Initial analysis on RNA seq of nuclear and total fractions:

• Initial data QC

---

---

---

This reproducible R Markdown analysis was created with workflowr 1.0.1

---