ImageXD 2019

September 11–13, Berkeley Institute for Data Science, Berkeley


Welcome to Berkeley and to ImageXD 2019. Here are some relevant links for following this year's event:

We are also on Twitter with #ImageXD.

Tutorial materials are linked from their respective entries on the schedule below.


Incredible advances are being made in image processing techniques, tools, and sampling modalities which, together with an increased accessibility to modern imaging equipment, has made image data ubiquitous across many fields, with scales ranging from microscopy to radio astronomy.

ImageXD aims to:

  • Foster a cross-disciplinary community of image processing experts from academia, research, and industry.
  • Develop a shared understanding of each other’s use of image processing data, algorithms, and software.
  • Help us learn from one another, through tutorials, and collaborative work sessions, about available tools and methods, and the applicability of these to various discipline-specific problems.

Our annual conference is our main avenue for achieving these aims.

You may contact the organizers at


Wednesday (11 Sep)

08:50–09:00 — Check-in / Breakfast —
09:00–09:15 Welcome David Mongeau
09:15–10:10 scikit-image: Introduction Stéfan van der Walt
10:20–12:30 scikit-image: 3D Image Processing Dani Ushizima, Alex de Siqueira
12:30–14:00 — Lunch —
14:00–15:30 Neural Networks Ariel Rokem, Henry Pinkard
15:30–15:45 — Tea break —
16:00–17:30 Volume Registration Maryana Alegro, Matt McCormick

Thursday (12 Sep)

08:50–09:00 Breakfast
09:00–09:10 Welcome & logistics Dani Ushizima
09:10–9:40 Spatiotemporally adaptive imaging with smart microscopy Loic Royer
09:40–10:00 Neural network-controlled microscopy and optimization-based image registration Henry Pinkard
10:00–10:20 Napari: multi-dimensional image visualization in Python Kira Evans
10:20–10:40 Global scale observation using satellite imagery and machine learning Esther Rolf
10:40–11:10 — Break —
11:10–11:30 Microscopy image analysis Cedric Espenel
11:30–11:50 Lights! Camera! Extraction! ML methods for when your data is ready for prime time Pablo Damasceno
11:50–12:10 Working with multidimensional microscopy images in Julia Tamas Nagy
12:10–13:10 — Lunch —
13:10–17:30 — Collaborative Work —

Friday (13 Sep)

08:50–09:00 Breakfast
09:00–09:10 Logistics
09:10–9:40 Imaging complex biological machines in action Carolyn Larabell
09:40–10:00 Invited Talk, TBA Matthew Rocklin
10:00–10:20 Slideslicer: a package for manipulation of whole slide imaging and annotations Dima Lituiev
10:20–10:40 Modeling flexibility in macromolecular structures obtained by cryo-electron microscopy Iris Young
10:40–11:10 — Break —
11:10–11:30 Data driven design for computational microscopy Michael Kellman
11:30–11:50 Convolutional Neural Networks of Fiber Detection models Silvia Miramontes
11:50–12:10 Recognizing the Impossible Image: How 3D Imaging Can Lead to Optical Character Recognition for Cuneiform Tablets Adam Anderson
12:10–13:10 — Lunch —
13:10–16:00 — Collaborative Work —
16:00–17:30 — Lightning Talks —


190 Doe Library, UC Berkeley Campus, Berkeley, California.

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  • Daniela Ushizima, LBNL / UC Berkeley

  • Maryana Alegro, UCSF / UC Berkeley

  • Kevin Keys, UCSF / UC Berkeley

  • Henry Pinkard, UC Berkeley

  • Stéfan van der Walt, UC Berkeley

You may contact the organizers at