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Introduction Guide
The PDF Reader 
for Research
Highlights
Getting Started
Welcome to a different PDF reader! Highlights extracts the 
text and images you markup and formats them into notes 
on the fly. It will also extract annotations from your existing 
PDFs when you open them.
Let’s go through the basics of using the app starting with 
the interface. The Toolbar is located at the top:
By default the document window has three panes: 
Thumbnails to the left, PDF in the middle and Notes on your 
right. If you would like to change the size of any of the views 
click and drag the divider between the views.
To show/hide the thumbnails view click the Display Settings 
button to the far left in the toolbar. Similarly, to show/hide 
the Notes view click the Show/Hide Notes button to the far 
right in the toolbar.
Go Back/
Forward
Annotation Tools
Search
Metadata
ShareDisplay 
Settings
Print
Show/Hide 
Notes
Tab 
Overview
Highlights for Mac supports Tabs. To open a PDF as a new 
tab click the Tab Overview button and click the + symbol.
To customise the default behavior of the app and much 
more check out the settings in the Preferences window 
accessible from the Highlights menu in your menu bar.
When you close your PDF window the changes you have 
made are automatically saved.
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To annotate a PDF you select the content with your finger 
and use the popover to specify the markup type:
Annotate Faster
To change an existing annotation or add a comment, click 
the annotation to bring up the annotation popover:
Strikethrough Highlight Image Selection
You can also select the annotation tool first from the toolbar 
and annotate with that specific tool continuously.
To annotate even faster, enable default annotation colors 
in Preferences under the Annotation pane.
Delete Annotation
Modification Date
Color
Author
Comment
PRO
Annotation Color
Underline NoteCopy Look Up
Made for Research
PRO
PRO
Extracting text is just the beginning. Highlights can extract a 
range of information and is optimized for scientific articles.
Image Selection: grabs an image of the current 
selection in the PDF.
Table Recognition: Convert image selections to 
tables with actual data using machine learning.
Text Recognition: OCR a selection to extract 
text from PDFs without a working text layer.
Citation lookup: Markup the text of a citation and 
click the link icon in the Annotation Popover.
Fetch metadata: Automatically detect DOI-links in 
scientific literature and download the metadata.
PRO
PRO
Grouping
Left align Center align Right Align
Merged Long Cell	
Split 50 % 50 %
Mass 100 kg 10 mg
Time 32 s 10 h 10 min
iPhone & iPad Mac
Iijima, S. Nature 354, 56–58 (1991)
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Jonas M. Ribe
[Link](https://doi.org/10.1038/354056a0)
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| | Grouping ||
| :--------- | :----------: | ----------: |
| Left align | Center align | Right Align |
| Merged | Long Cell ||
| Split | 50 % | 50 % |
| Mass | 100 kg | 10 mg |
| Time | 32 s | 10 h 10 min |
Export Anywhere
Smart Copy gives you the 
desired format depending on the 
context. 
Copying an image selection will 
paste a PNG, a citation a BibTex 
string and a table a CSV that can 
be imported into a spreadsheet.
As a Pro user, you can export your notes 
to editable formats such as Markdown, 
TextBundle and HTML. You can also 
open them directly in shoebox 
applications like Evernote, DEVONthink, 
Ulysses, Bear and Keep It.
PRO
PRO
Copy the contents of an annotation using 
the copy button in the popover.
Click the Share icon in the toolbar to 
export your Notes or the PDF itself. 
Notes can be exported anywhere as 
PDF files in the free version.
Customize the appearance of your notes 
using the Format options. Here you can 
decide what to include in your Notes.
Sort your annotations by color lets you 
use your own color categories and 
sorting order for your annotations.
Jonas M. Ribe
Highlights Pro
Essentials Free Pro
Read & Annotate PDFs ✔ ✔
Smart Merge Annotations ✔ ✔
Edit PDF Metadata ✔ ✔
Handoff between iPhone, iPad and Mac ✔ ✔
Notes
Sort Annotations by Color Categories ✔ ✔
Export Notes as PDF ● ✔
Export Notes as Markdown, HTML & TextBundles ● ✔
Export Notes Directly to Other Apps ● ✔
Save Sidecar Markdown Files (macOS) ● ✔
Productivity
Text Recognition ● ✔
Table Recognition ● ✔
Smart Copy ● ✔
Custom Default Colors for Annotation Tools ● ✔
Underline Power Tools ● ✔
Selection Power Tools ● ✔
Research
Fetch Metadata ● ✔
Citation Lookup ● ✔
Integrate with Reference Managers ● ✔
Support for Math Formulas (MathJAX) ● ✔
Appearance
Dark Mode ✔ ✔
Unlocks all the features on your iPhone, iPad and Mac.
For more information see highlightsapp.net/pro
http://highlightsapp.net/pro
More tutorials and a FAQ can be found on: 
highlightsapp.net
Thank you!
http://highlightsapp.net/tutorials
http://highlightsapp.net/faq
http://highlightsapp.net