Florian Jug (DIAS, CIBI), Robert Haase, Thomas Julou

02.05.2017 – 03.05.2017

Biozentrum, Basel

The first MoMA workshop will gather researchers and students using microfluidics and microscopy for quantitative microbiology. The aim of the workshop is to introduce participants to using MoMA, a new image analysis software dedicated to the analysis of mother machine experiments.

Among the key novel features of MoMA is the fact that it solves the segmentation and tracking as a joint optimization task, and the fact that it allows for leveraged editing: a graphical interface lets users view the solutions of the tracking and, whenever a mistake is found, give the software a correcting directive by mouse-click. MoMA then automatically re-optimizes the segmentation and tracking, taking the given directives into account as additional constraints.

MoMA is open source and hosted on GitHub along with its documentation and was developed by Florian Jug. It is the result of a collaboration between the group of Erik van Nimwegen (Biozentrum Basel) and the group of Gene Myers (MPI-CBG, Dresden).

Learning goals:
Data handling and integration of the software MoMA in you lab’s workflow. Usage of MoMA (interactive as well as in headless mode on a cluster). Downstream processing of MoMA exports.

Practical experience with a microfluidic devices known as Mother Machines.

MoMA, Mother Machine, Segmentation, Tracking


Florian Jug (This email address is being protected from spambots. You need JavaScript enabled to view it.)