Skip to content


Subversion checkout URL

You can clone with HTTPS or Subversion.

Download ZIP
the ultimate scientific image processing tool built with cappuccino
branch: master

Fetching latest commit…

Cannot retrieve the latest commit at this time

Failed to load latest commit information.


Cellfinder is a comprehensive framework for image filtering and feature extraction. Cellfinder unifies the power of R (i.e. EBImage), ImageMagick, Postgres, Perl and arbitrary command line tools into a simple flat graphical block oriented programming language similar to QuartzComposer. Cellfinder additionally comes with image and feature editors and a storage facility. It is ideally suited to build e.g. automated laboratory cell counting solutions for repetitive laboratory experiments.

Features include:

  • 100% browser based
  • Desktop-quality UI (e.g. keyboard navigation, unlimited undo / redo)
  • Image repository
  • Feature extraction
  • Feature database/editor
  • Feature aggregation
  • Batch processing
  • Stack support
  • Image registration
  • RESTful API (incl. WebSocket)


# the easiest way to get Postgres up and running on a mac is
# we need a current R version including developer tools
# perl is already installed on linux and mac but we need quite a bunch of non-core perl modules
sudo perl -MCPAN -e 'install ($_) for qw/Mojolicious Mojolicious::Plugin::Database Mojolicious::Plugin::RenderFile SQL::Abstract::More Apache::Session::File Spreadsheet::WriteExcel DBD::Pg ImageMagick Statistics::R/'
# now download this repo and cd into it
morbo # this starts the testing server
# now locate your favourite web browser to http://localhost:3000/Frontend/index.html
# you may eventually want to automatically launch hypnotoad (production server) 


This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see

Something went wrong with that request. Please try again.