TeXMe (https://github.com/susam/texme): This is my personal favorite because it supports the CommonMark standard of Markdown and also LaTeX via MathJax. I like standards so that I know that the Markdown I write (especially nested lists, code within nested lists, etc.) get rendered the same way everywhere. I write some math too, so MathJax support is useful. If you are looking for something where you can just slap together Markdown and LaTeX and turn the document instantly into a paper-like finish, this is a good choice. The output can be saved as PDF or printed too just like you would print any paper.
MdMe (https://github.com/susam/mdme): This is pretty much TeXMe without MathJax support.
Markdeep (https://casual-effects.com/markdeep/): This is like TeXMe but it supports a lot of features like diagrams, tables, etc. But it comes at the cost of standard conformance. Markdeep does not conform to CommonMark. I don't need these additional features for most of my writing but I care about standard conformance, so I go with TeXMe but if you need these features then Markdeep is a good choice.
Comparison of TeXMe vs. Markdeep by the author: https://news.ycombinator.com/item?id=18314175