Can I convert multiple markdown files to html via command line?

have a look at http://pandoc.org/ or markdown-it https://github.com/markdown-it

It all depends, whether you want to merge the HTMl files or not:

# Single output files
for f in *.md ; do pandoc --metadata title=Cytosim $f -f markdown -t html -s -o ${f%%.md}.html; done

# One output file
pandoc *.md -f markdown -t -s html -o merged.html
