| title | author | date | output | ||||
|---|---|---|---|---|---|---|---|
README: Title of repo version 0.0 |
Andrew Davis |
2021-12-17 |
|
This directory contains an analysis of....
The experiments were performed by ______ in the lab of ____.
The full analysis for this study can be found on_____
This analysis was version controlled as a GitHub repository, and can be accessed at the following url . Updates to this analysis will be tracked at the this location. For access to this repository, please reach out to ______.
Metadata associated with this analysis can be found in the Metadata folder. Note that the contents of this folder will not be tracked by the remote repository by default (these files tend to be large to store on GitHub). To track the contents of this folder, one must remove the line "/Metadata/" from the .gitignore file.
The input data was acquired from ______ on 0/0/0000. Note that the contents of this folder will not be tracked by the remote repository by default (these files tend to be large to store on GitHub). To track the contents of this folder, one must remove the line "/Input/" from the .gitignore file.
...
To run this analysis, first create/clean the results output folder by running the codes in 95_Make_Clean.Rmd. Subsequently, run the code chunks in 99_Run_All.Rmd. This will run the Rmarkdown (.Rmd) files containing the actual code for this analysis in numerical order (i.e., 1.03_Gather-and-Tidy-Data.Rmd, followed by 2.03_Downstream_Analysis.Rmd). Note that one must modify the variable "files_in_r_to_run" in 99_Run_All.Rmd if one edits or add/deletes filenames of .Rmd scripts associated with this analysis.
Running 99_Run_All.Rmd will also render html files of each .Rmd file, which will be saved to the results folder, making useful reports of this analysis. Finally, this README.Rmd files will also be knitted to an html file, as well as a markdown (.md) file, in the working directory of this repository. This markdown file makes for easy viewing on GitHub, and acts as the "home page" for this repo.
The resulting output files were saved to the Results folder in this repository. Note that the contents of this folder will not be tracked by the remote repository by default (these files tend to be large to store on GitHub). To track the contents of this folder, one must remove the line "/Results/" from the .gitignore file.
## [1] "1.03_Gather-and-Tidy-Data.html" "2.03_Downstream_Analysis.html"
Describe any and all major insights generated from this analysis here....
Presentations and reports shared with other members of our team are stored in Presentations_Reports. Note that the contents of this folder will not be tracked by the remote repository by default (as these files tend to be large to store on GitHub). To track the contents of this folder, one must remove the line "/Presentations_Reports/" from the .gitignore file.
...
This repository was generated from 10adavis/Rmarkdown_Template_2021.
sessionInfo()## R version 4.1.0 (2021-05-18)
## Platform: x86_64-w64-mingw32/x64 (64-bit)
## Running under: Windows 10 x64 (build 19043)
##
## Matrix products: default
##
## locale:
## [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252
## [3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C
## [5] LC_TIME=English_United States.1252
##
## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] BiocManager_1.30.16 rmarkdown_2.11 here_1.0.1
##
## loaded via a namespace (and not attached):
## [1] digest_0.6.27 rprojroot_2.0.2 magrittr_2.0.1 evaluate_0.14
## [5] rlang_0.4.11 stringi_1.7.6 renv_0.14.0 jquerylib_0.1.4
## [9] tools_4.1.0 stringr_1.4.0 xfun_0.25 yaml_2.2.1
## [13] compiler_4.1.0 htmltools_0.5.1.1 knitr_1.33
This document was processed on: 2021-12-17.