Data-Science-with-R/README.Rmd at main · niaid/Data-Science-with-R · GitHub

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# Data Science with R

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The goal of this repository is to provide a series of course materials that is used for online seminars to introduce modern data science practice using the R language.  Each subfolder in the respository provides materials for a specific course in the seminar series.

Instructor: `Gabriel Rosenfeld`

Contact: `bioinformatics@niaid.nih.gov`

### Courses

* **intro_programming_r**: provides the basics of using the R programming language for analysis and is suitable for those who are new to using the R language
* **reproducible_workflows_r**: provides an introduction to using reproducible workflows with a data analysis project through the targets R package and is suitable for intermediate R users with familiarity to functions, project organization, and manipulating files
* **reproducible_workflows_hpc**: provides an overview of using the targets reproducible workflow approach on the NIAID LOCUS High-Performance computing environment to scale up analyses and is suitable for intermediate/advanced R users with familiarity to functions, project organization, file manipulation, as well as understanding/access to an HPC environment

### Useful Resources:

#### Intro Programming R course:

* [Comprehensive Introduction to R](https://cran.r-project.org/doc/manuals/r-release/R-intro.pdf)
* [R for Data Science](https://r4ds.had.co.nz/index.html)
* [Data Science: Foundations using R Specialization](https://www.coursera.org/specializations/data-science-foundations-r#courses)
* [RStudio Education](https://education.rstudio.com/)
* [RStudio Cheat Sheets](https://www.rstudio.com/resources/cheatsheets/)

#### Reproducible workflows R course

* [targets](https://docs.ropensci.org/targets/)
* [tarchetypes](https://docs.ropensci.org/tarchetypes/)
* [targetopia](https://wlandau.github.io/targetopia/)
* [targets user manual](https://books.ropensci.org/targets/)
* [tflow](https://github.com/MilesMcBain/tflow)
* [Writing functions in R](https://r4ds.had.co.nz/functions.html)
* [Project based data management](https://rstats.wtf/index.html)

#### Reproducible workflows HPC course

* See above workflows R course bullets for relevant background on targets and concepts
* [NIAID LOCUS](https://inside.niaid.nih.gov/media/locus-high-performance-computing-hpc-support-portal)
* [Using NoMachine with NIAID LOCUS](https://hpcweb.niaid.nih.gov/userportal/documentation.php#FAQ/the-nomachine-terminal-server)
* [Using targets on HPC with future](https://books.ropensci.org/targets/hpc.html#future)
* [tar_make_future](https://docs.ropensci.org/targets/reference/tar_make_future.html)