Manuscripts is a new platform to simplify writing a paper. Here is what I heard back from them when I asked them to integrate their software with the Paperpile.
Is this something worth looking into?
Re: Manuscript and Paperpile
I should also note, you can also use the internal citation tool included with Manuscripts to cite: http://support.manuscriptsapp.com/topic/15/citing-without-the-papers-reference-manager without any particular citation tool support, just by importing bibliography data files into the app.