Last updated: 2018-08-28

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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: f774786

  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:    .RData
      Ignored:    .Rhistory
      Ignored:    .Rproj.user/
  
  Untracked files:
      Untracked:  com_threeprime.Rproj
      Untracked:  data/PeakPerExon/
      Untracked:  data/PeakPerGene/
      Untracked:  data/comp.pheno.data.csv
      Untracked:  data/dist_TES/
      Untracked:  data/dist_upexon/
      Untracked:  data/liftover/
      Untracked:  data/map.stats.csv
      Untracked:  data/map.stats.xlsx
      Untracked:  data/orthoPeak_quant/
  
  Unstaged changes:
      Deleted:    comparitive_threeprime.Rproj
  
  

  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
Rmd	f774786	brimittleman	2018-08-28	initialze APA pheno analysis and map peaks to genes
html	5b4893e	brimittleman	2018-08-24	Build site.
Rmd	679aef4	brimittleman	2018-08-24	initalize reads per peak analysis and update index
html	d0d4599	brimittleman	2018-08-21	Build site.
html	7bdbd48	brimittleman	2018-08-17	Build site.
Rmd	392aed9	brimittleman	2018-08-17	lift code and add to index
html	6121748	brimittleman	2018-08-01	Build site.
Rmd	c0705d5	brimittleman	2018-08-01	Start workflowr project.

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Create orthologous peak file:

• Call Peaks

• Lift Over

• Characterize ortho peaks

• Reads per Ortho Peak QC

• Prepare Phenotype for APA

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This reproducible R Markdown analysis was created with workflowr 1.1.1

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