Editing Tools (section)

===To JATS===

====From Word DOCX and other Word-processor formats====

=====Biomedical Plain Text to JATS=====
[https://sci.ai/ sci.AI] semanticizes concepts, relationships and authors in a plain text paper. Then it generates enhanced JATS with biomedical metadata.

=====eXtyles=====

[http://www.inera.com/extyles-products/extyles eXtyles] automates time-consuming aspects of document editing in Microsoft Word and exports to JATS XML (as well as many other DTDs).

=====Article Authoring Add-in for Word (NLM JATS)=====

As described at http://authoring.codeplex.com/ , "[t]his add-in for Microsoft Word enables authors/editors to use Microsoft Office Word to create, edit, and save files in the National Library of Medicine's NLM DTD (article or book) format." Though released in 2012, it was developed many years ago.

=====meTypeset=====

[https://github.com/MartinPaulEve/meTypeset meTypeset] "is a fork of the OxGarage stack" "to convert from Microsoft Word .docx format to NLM/JATS-XML". It is implemented as part of the PKP XML parsing stack.

=====Open Typesetting Stack (PKP XML Parsing Service)=====

The Open Typesetting Stack (formerly the PKP XML Parsing Service: [https://github.com/pkp/xmlps sourcecode], [http://pkp-udev.lib.sfu.ca/ beta site]) converts Word documents to NLM DTD 3.0 XML, HTML, and PDF using meTypeset and other tools. As of April 2015, it's in beta, with metadata parsing disabled because of poor results. A plugin is being developed for Open Journal Systems (OJS) that will call this service. For more information, see [http://www.ncbi.nlm.nih.gov/books/NBK279666/ a paper presented at JATS-Con 2015].

=====Migrate (from Stilo)=====

A proprietary cloud-based service: http://www.stilo.com/migrate-jats/

=====OxGarage=====

[http://www.oucs.ox.ac.uk/oxgarage/ OxGarage] can convert documents from various formats into "National Library of Medicine (NLM) DTD 3.0" (as well as various other formats). See [http://wiki.tei-c.org/index.php/OxGarage documentation].

=====Markdown to JATS=====

[http://blog.martinfenner.org/2013/12/12/from-markdown-to-jats-xml-in-one-step/ pandoc-jats]

=====PDF to JATS=====

This is a very difficult problem to solve. Success depends on how well structured your PDFs are and, for batch conversion, how consistently structured your PDFs are.

* [http://www.shabash.net/merops/default.html Shabash Merops]
* [http://pkp.sfu.ca/ The Public Knowledge Project] is developing a pipeline for converting PDF to JATS. It will include use of [http://pdfx.cs.man.ac.uk/ pdfx].

=====bepress OAI-PMH XML to JATS=====

[https://github.com/gilmani/oaipmh_jats oaipmh_jats]: "This XSL stylesheet transforms OAI-PMH XML from the bepress Digital Commons platform to JATS DTD 1.1d2 XML. Input is issue-level data; output is as article-level files. Limited metadata fields are used, as this was originally created for the purpose of creating brief article records for deposit with Portico."

====Native editors====

[http://substance.io/texture/ Substance]