Interested in building your own R package? Here I’ll outline the steps I took to create my own! Note this will be tailored specifically to creating Bioconductor packages, not CRAN. So just keep that in mind.

Useful resources

• R packages by Hadley Wickham and Jenny Bryan
• Bioconductor package guidelines
• biocthis package

Getting started

Project tree

| - .github
  | -- ISSUE_TEMPLATE
    | --- issue_template.md
  | -- workflows
    | --- check-bioc.yml
    | --- R-CMD-check.yaml
    | --- test-coverage.yaml
| - R
  | -- data.R
  | -- fedup.R
  | -- femap.R
  | -- genes.R
  | -- pathways.R
  | -- plot.R
| - data
  | -- geneDouble.rda
  | -- geneMulti.rda
  | -- geneSingle.rda
  | -- pathwaysGMT.rda
  | -- pathwaysTXT.rda
  | -- pathwaysXLSX.rda
| - inst
  | -- extdata
    | --- Human_Reactome_November_17_2020_symbol.gmt
    | --- NIHMS1587165-supplement-1587165_Sup_Tab_2.txt
    | --- SAFE_terms.xlsx
  | -- figures
    | --- fedup.png
    | --- fedupDotplot-1.png
    | --- fedupEM.png
  | -- script
    | --- genes.R
    | --- pathwaysGMT.R
    | --- pathwaysTXT.R
    | --- pathwaysXLSX.R
  | -- NEWS.Rd
| - man
| - tests
  | -- testthat
    | --- test_1_pathways.R
    | --- test_2_genes.R
    | --- test_3_enrichment.R
    | --- test_4_plot.R
    | --- test_5_em.R
  | -- testthat.R
| - vignettes
  | -- figures
    | --- fedupEM_geneDouble.png
    | --- fedupEM_geneMulti.png
    | --- fedupEM_geneSingle.png
  | -- fedup_doubleTest.rmd
  | -- fedup_multiTest.rmd
  | -- fedup_singleTest.rmd
| - .Rbuildignore
| - .gitignore
| - .travis.yml
| - DESCRIPTION
| - LICENSE
| - NAMESPACE
| - README.Rmd
| - README.md

.github

R

data

inst

man

tests

vignettes