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Rscript -e "rmarkdown::render('text-manipulation.Rmd', rmarkdown::md_document(preserve_yaml = TRUE, variant = 'gfm', pandoc_args = '--markdown-headings=atx'))" ## atx headers ensures headers are all like #, ##, etc. Shouldn't be necessary as of pandoc >= 2.11.2
## 'gfm' ensures that the 'r' tag is put on chunks, so code coloring/highlighting will be done when html is produced.