Qiqqa Review: Complete Workflow For Research

Qiqqa is a different type of research software. It isn’t just bibliographic software, but a solution to the entire workflow of grad school research. This approach puts it on a whole other level from other research software, but how does it live up to this more comprehensive task?

I actually stumbled upon Qiqqa in the comments section of an article detailing a more well-known bibliographic option about 5 months ago. I was searching for an alternative to the industry-dominating, but frustrating EndNote. While EndNote does citations and bibliographies extremely well, it does almost everything else poorly.  It’s user interface is poor, it doesn’t handle multiple computers well (I juggle 3), and its more powerful features are difficult to master. I realize that there are many scholars that have mastered EndNote and find it a useful tool.  I however chose to spend my time finding a better tool instead of mastering an old one after trying EndNote online.  It was proof enough that the tool won’t be moving where I want it anytime soon.

What initially attracted me to Qiqqa over other options I investigated, such as Mendley and Zotero, was the annotation report. Up to this point, I had largely used iAnnotate on my iPad for reading, highlighting, and notating journal PDFs. I then emailed an annotation report for each article from the iPad to myself, used it to create an outline, wrote my papers and then used EndNote to keep my citations under control stylistically. When I watched the Qiqqa demo video my mouth literally dropped open when it displayed the ability to generate annotation reports from multiple PDFs including figures with the click a mouse! The potential time and hassle savings to me were huge – even more so to someone using a less powerful PDF viewer (as many of my cohort do).

The option to sync Qiqqa across multiple computers for free (well up to a certain amount of PDFs) was also a nice bonus as well. I religiously use dropbox for all things PhD to keep my home desktop, work desktop, laptop and iPad up to date with the latest version of my projects.

That was way back in version 32 and Qiqqa is already up to version 40 – another strong reason to switch. Qiqqa releases monthly updates that add new features and polish older ones. This has made this review more difficult as I tried to pin down a moving target while keeping up with my scholastic demands.  Several of my complaints and two suggestions have already been addressed in those updates. The Qiqqa team really does listen to users and work hard to improve their software. Because of this continual improvement, I am going to be a bit of a stickler in this review. Please don’t view this as a reflection of my dislike for the software, but rather a desire to see it reach its full potential.

It should also be pointed out that while Qiqqa is by far the best solution to assist one’s overall research workflow, it does not handle some of the individual tasks as well as other options. But the completeness is the real beauty of using Qiqqa for research. You can use it to assemble, organize, read, highlight and annotate your PDFs, then sync them to your home computer. Later you can start writing from a word doc of all your notations that took 10 seconds to create.  Finally add in properly styled citations with InCite to complete your paper. It really does help one research “qiqqa”.


  • Multiple annotation tools for PDF markup
  • Tags for annotations makes finding relevant quotes easier
  • Tags for documents and multiple libraries keep an every growing pile of PDFs reasonably organized
  • Annotation report saves valuable time
  • Multiple tools such as cross referencing documents, auto-tagging, & ”expedition” themes help you find related PDFs to include in your research
  • Built in OCR can be “forced” on stubborn PDFs (I’ve found many PDFs with a “locked” first page that prevented other viewers from highlighting or coping the text.)
  • Monthly updates

Future Potential: the brainstorm and expedition areas show a lot of promise but I can’t call them a strength just yet. However, by fall semester, expedition could be reason enough to switch to Qiqqa.


  • No iPad support
  • Reliance on Google Scholar for bibliographic information means that some documents must be entered manually.  (This is an area where EndNote succeeds.)
  • Poor handling of book chapters authored by someone other than the main editors of the book.
  • BibTex area is not robust for manual entry and occasionally for imported entry. (e.g. selecting the type often does not change the fields, multiple author names must be entered precisely to display in proper style in InCite)
  • Doesn’t handle landscape pages well. While one can rotate the page for reading, the annotation tool doesn’t rotate with it making positioning a box annotation difficult. Also closing the PDF sets all the pages back to their original position.
Developer Suggestions
  • A search all libraries option
  • A deep scan option for auto-tagging. Every PDF has a word cloud that is currently unused in creating a auto-tags.
  • A way to filter out a document tag such as all of my isomorphism tagged documents except those tagged normative
  • An option to include the InCite key in the annotation report to speed the process of citing quotations
  • The online libraries should list my tags as a link, not make me remember them and type them into a box.
  • Handle double column PDFs better. 1) Highlighting a sentence in one column shouldn’t grab an image for both columns. 2) The annotation report should display in column order not top down (a box farther down on the left column should display before one higher up on the right column)
  • User option on the default settings for annotation boxes. I would save countless mouse clicks if I could set the suppress image to checked as the default.

One last thing to touch on is Qiqqa Premium. Qiqqa’s software is free and you can even use Qiqqa online for free up to 200MB which is actually enough for a single project for most people.  However, I personally think it is worth the $3 a month to get premium. Why? No ads, 8 GB (40x more) online space, and updates! Yes, free users get updates too, but Qiqqa has very reasonable rates to support further software development. Or consider this: how much would you pay to save an hour a week on your research?

So in summary, the bibliographic aspect is Qiqqa’s weakest area but it excels in several other areas – some of which aren’t even offered by the competition.

Grade: Editor’s Choice Award

Qiqqa Software + Online FREE – Premium Online $3/month

Review: New iPad Mixed Bag For PhD Students

As someone that spends countless hours reading on my iPad, I hit the buy button (figuratively) the moment the retina display iPad went from rumor to reality.  But how does the new iPad screen hype measure up to its PhD duties? Not as well as one might hope.

Some issues are software related such as DocsToGo’s confusion over how big the text is compared to the cursor.  (The pic below is at max zoom.)  But such issues should be fixed soon (hopefully) as apps update to support the retina display.

UPDATE: DocsToGo’s latest update fixed this issue.

Other issues, however, are more PhD-centric and won’t change such as the crispness of PDFs on the display. Most text and graphics are stunning on the new display as seen in the web iPad 2 comparison pic below.

However, PhD students are going to spend most of their time starting at PDFs (often scanned) of journal articles not the crisply rendered, retina display ready text.  For PDF viewing the gap between the new iPad and the iPad 2 is much smaller.  Newer (more recent) PDFs fare better than older (poorly scanned) ones, but the difference is still fairly small.  As you can see in the screen capture comparison post, the extra pixels aren’t as helpful if they being used to render messy lettering.

But the new screen does win in the end in two ways.  Although small, the added pixels do seem to render a “softer” image that is a little easier on a grad students eyes. Also, it is easier to “snap” to a better zoom level for reading. In iAnnotate (my PDF reader of choice), one will find better rendering of the text when zooming in or out because of the pixels lining up with the PDF lettering.  The extra pixels allow this alignment to happen at a lot more levels which makes it easier to find an “optimum” zoom level for pleasant reading.

Speaking of pleasant reading, I should also quickly note that the new iPad has a more comfortable edge (I always found the iPad 2’s edge a bit sharp).  It is also noticeably heavier.  I didn’t really think the extra 0.1 lbs would make a difference but in long reading sessions I do find the new iPad tires me out faster. This is not a huge difference but it is a noticeable one.

So in summary, PhD students lusting after the latest iPad should realize that it is superior to the iPad 2 but only by a small margin for scholarly activities.  That coupled with the cost savings of an iPad 2 (especially a used one), makes the decision more of a personal choice based on one’s finances and usage.