ImageXD Workshop 2018

Program

Day 1: Wed, May 16th (Learn)

Learn image analysis and deep learning tools

Time Task
9:00-9:15 Coffee
9:15-9:30 Welcome with BIDS Director Saul Perlmutter
9:30-10:30 Introduction to numerical analysis with Python (e.g. NumPy, SciPy, and Matplotlib) (Stéfan van der Walt – UC Berkeley)
10:30-11:30 Image Processing in Python (scikit-image) (Stéfan van der Walt – UC Berkeley)
11:30-1:00 Lunch
1:00-2:00 Deep Learning Hands-on Demo with Keras (Ariel Rokem — U. Washington)
2:00-3:00 Deep Learning Hands-on Demo with Tensorflow (Peter Chang — UCSF)
3:00-3:30 Break
3:30-4:30 Parallel processing tool within Python and Dask (Valentina Staneva — U. Washington)
4:30-5:00 Discussion

Day 2: Thu, May 17th (AM: Talks, PM: Create)

Tools and approaches from across disciplines + hands-on learning

Time Task
9:00-9:15 Coffee
9:15-9:45 Maxim Ziatdinov — Deep learning for atomically resolved imaging techniques: chemical identification and tracking local transformations — Oak Ridge National Laboratory
9:45-10:15 Duygu Tosun — Neuroimaging biomarkers of neurodegenerative diseases and psychiatric disorders — UCSF
10:15-10:45 James Coughlan — Computer vision for the visually impaired — Smith-Kettlewell Eye Research Institute
10:45-11:00 Break
11:00-11:30 Amit Kapadia — Building Global Mosaics — Planet
11:30-12:00 Natalie Larson — In-situ X-ray computed tomography for defect evolution — UC Santa Barbara [samples]
12:00-12:30 John Canny — Deep net visualization, interpretable driving — UC Berkeley
12:30-2:00 Lunch
Panel over lunch
2:00-2:30 John Kirkham — Interactively analyzing larger than memory neural imaging data — Howard Hughes Medical Institute
2:30-5:00 Collaborative work session — Click for Hack Proposals
5:00-10:00 Social Event at Galvanize - San Francisco (SoMa)
“Come join a computational get together hosted by the Chan Zuckerberg Initiative with folks thinking about image analysis and visualization applied to a variety of domains. There will be science, games, coding, beer, wine, food, and fun! Meet new friends, learn cool tools, and look at awesome images.”
Transportation: The easiest way to get to Galvanize is to take BART from Downtown Berkeley to the Montgomery Street Station. 44 Tehama St is about an 8 minute walk. Parking is limited in the area.

Day 3: Fri, May 18th (AM: Talks, PM: Create)

Tools and approaches from across disciplines + hands-on learning

Time Task
9:00-9:15 Coffee
9:15-9:45 Matt McCormick — Interactive Analysis and Visualization of Large Images in the Web Browser — Kitware
9:45-10:15 Suhas Somnath — Pycroscopy - a python package for analyzing, storing, and visualizing multidimensional scientific imaging data — Oak Ridge National Laboratory
10:15-10:45 Janine Lupo — Challenges in Identifying & Translating Quantitative MR Imaging Markers to Evaluate the Effects of Therapy in Patients with Brain Tumors — UCSF
10:45-11:00 Break
11:00-11:30 James Sethian — Mathematics for image across domains — CAMERA, Lawrence Berkeley National Laboratory
11:30-12:00 Ashish Raj — Beyond images: Opportunities for modeling of diseases using image-processed data — UCSF
12:00-12:30 Deep Ganguli — Starfish: A Python library for Image Based Transcriptomics — Chan Zuckerberg Initiative
12:30-2:00 Lunch
Panel over lunch Questions (#ImageXD)
2:00-4:45 Collaborative work session — Click for Hack Proposals
4:45-5:00 Closing Remarks

Registration is closed