Citation Tools JATS Editor

User Guide

Superscriptify converts bracketed citations into clean, consistent superscripts or markers, or removes them entirely. It is built for Word documents, PowerPoint slides, JATS XML, HTML, plain text, and eLearning translation files (Rise XLF and Storyline Word exports), so teams can keep editorial and compliance workflows fast, accurate, and repeatable.

Compared to manual cleanup, Superscriptify reduces formatting errors, preserves numbering consistency, and can handle hundreds of citations in minutes. It also flags suspect citation text and lets you merge or exclude entries before changes are applied.

Supported files

  • Word documents (.docx)
  • PowerPoint presentations (.pptx)
  • JATS XML (.xml)
  • HTML (.html/.htm)
  • Plain text (.txt)
  • Rise 360 translations (XLIFF .xlf)
  • Storyline 360 translation exports (Word .docx with 4-column tables)

Modes

Manage Citations (Superscript) converts bracketed citations into superscripts or markers.

Remove Citations deletes bracketed citations without inserting superscripts or markers.

Step-by-step workflow

1) Upload

Upload a Word, PowerPoint, JATS XML, HTML, TXT, or XLIFF file and choose the mode. Storyline exports are detected automatically based on the 4-column Translation table format. PowerPoint scans slide text, tables, grouped shapes, and speaker notes.

2) Choose your citation pattern

Select the character pattern(s) that separate publication text from location text. Examples include p#, pg#, or punctuation like commas and semicolons. You can select multiple patterns.

Then select the bracket types used around citations ([], {}, or ()). If you use parentheses and "None (publication only)", the tool uses additional rules to separate citations from normal text.

In Superscript mode, choose whether superscripts or markers appear before or after colons.

If your citations include multiple sources inside the same bracket, select "Yes" and choose a separator character (for example, semicolons). Superscriptify will split those citations before processing.

In Superscript mode, choose a marker type: superscripts, [#], or (#).

3) Review the preview table

The preview table shows extracted citation groups. Yellow highlights indicate near-duplicate groups, and green highlights flag likely non-citations. A red callout lists possible unbracketed citation text found outside brackets.

4) Edit citations

On the edit screen you can merge groups, exclude entries, and adjust ordering. Use the glossary tool to merge families of citations by prefix. In Superscript mode, you can add blank rows to preserve numbering when citations appear inside images.

5) Download

Superscriptify generates a processed file for download. Word files are returned as .docx; PowerPoint files are returned as .pptx; Rise/Storyline translations are returned as .xlf with updated targets; JATS XML, HTML, and TXT are returned in their original formats.

Bibliography tools

Superscript mode can reorder bibliography entries to match superscript or marker numbering. Remove mode offers an optional bibliography delete toggle for Word, PowerPoint, JATS XML, HTML, and TXT files.

Tips for best results

  • Use a marker pattern that reliably marks the location (p#, pg#, or a consistent delimiter).
  • When using multi-cite brackets, choose a separator not used elsewhere in the citation.
  • Fix missing brackets in the source document before proceeding.
  • Review green and yellow entries to avoid false positives.

JATS Editor overview

The JATS Editor lets you work with JATS XML in a visual, human-readable layout. Upload JATS XML or a Word document, review the tag structure in a sidebar, and edit content without touching raw XML.

Citations and references stay linked, and the editor can reorder references to match citation appearance before export. If your JATS file references images, exports include a zip with the XML and image folder.

JATS Editor workflow

  • Upload a JATS XML file, a Word document, or a zip containing XML plus images.
  • Review citations and references, then use the bibliography tools to match and order entries.
  • Edit tags using the sidebar controls and export a clean JATS XML file (or zip with images).