QuPath publications (& other news)

[Pete]

Hi everyone,

As 2017 comes to an end, I wanted to give a brief QuPath-related update.

Firstly, the main, citable paper describing QuPath was recently published in Scientific Reports.

Please do reference this paper if you publish any articles using QuPath!  It’s open access and online at https://www.nature.com/articles/s41598-017-17204-5

A second paper also emerged in Laboratory Investigation within the past few weeks.  It describes QuPath scoring for breast cancer biomarkers, and compares the results with a pathologist’s visual assessment: https://www.nature.com/articles/labinvest2017131

As more papers start to come out where QuPath has been used for analysis, it would be great if you could declare them here so they can be added to the list forming at https://github.com/qupath/qupath/wiki/Citing-QuPath

Beyond this, the use of QuPath continues to grow faster than I’d ever imagined.  GitHub stats indicate that the latest version (v0.1.2) was downloaded > 6300 times over the past year, while more than 170 new topics were started on Google Groups or GitHub.  In September, in connection with the European Congress of Pathology I gave a QuPath presentation at the Computational Pathology Symposium in Amsterdam (well, eventually, after a bit of laptop trouble...)  and soon after that the first workshops were held in Barcelona, Heidelberg, Uppsala and Zürich.  It's great to see the new and inventive ways the software is being used.

A lot of thanks has to go to users spreading the word, including with kind tweets, posts and comments.  All of these help justify continuing the work.  Among them, one particularly enigmatic and interesting comment made on bioRxiv recently stands out.

I plan to write a bit more about future plans involving QuPath in a few weeks.  In the meantime, feel free to get in touch if you’re interested and would like to discuss more.

Best wishes,

Pete