################
## R SPECIFIC ##
################

# History files
.Rhistory
.Rapp.history

# Session Data files
.RData

# User-specific files
.Ruserdata

# Example code in package build process
*-Ex.R

# Output files from R CMD build
/*.tar.gz

# Output files from R CMD check
/*.Rcheck/

# RStudio files
.Rproj.user/

# produced vignettes
vignettes/*.html
vignettes/*.pdf

# OAuth2 token, see https://github.com/hadley/httr/releases/tag/v0.3
.httr-oauth

# knitr and R markdown default cache directories
*_cache/
/cache/
07-publication/_freeze

# Temporary files created by R markdown
*.utf8.md
*.knit.md

# Output created by Quarto
/.quarto/

# R Environment Variables
.Renviron

######################
## PROJECT SPECIFIC ##
######################

05-results/ftir/
#04-analysis/
07-publication/_archive/
07-publication/_output/
**/*-fig-*
**/*.bam
**/*.sam.gz
**/*.sam
**/*.fastq.gz
**/*.fq.gz
**/*.fastq
**/*.fq
**/*.fasta.gz
**/*.fna.gz
**/*.fa.gz
**/*.fasta
**/*.fna
**/*.fa
**/*.nb.html
