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An R Markdown website template for a lab journal

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AMD Bioinformatics

These walkthroughs were created by Aaron Mitchell-Dick. They are based off of vignettes from source packages (see links to package vignettes/walkthroughs below). These walkthroughs are intended to be thorough enough that a user with beginning knowledge in bioinformatics can perform RNA-Seq analysis from scratch. They display commenting on common techniques an advanced user would already know. In addition to these, there are a lot of other great resources for beginniners that do not necessitate hard lessons in coding. For example Galaxy is an excellent resource for the entire bioinformatics community, and it's free. Any questions or commments please email [email protected]. Enjoy!

Links to vignettes and repositories mentioned in the walkthroughs on this website:

  1. kallisto
  2. tximport
  3. DESeq2
  4. TrimGalore
  5. FastQC and FastQC website

Other helpful links:

  1. kallisto indices and tarballs containing .gtf files

  2. github repo to fork to create your own website like this

  3. The definitive guide for all things R Markdown https://bookdown.org/yihui/rmarkdown/

This website was created by forking the original project from Matt Crump and the instructional YouTube video to set up your own webpage.

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