Schedule of Events

Advanced Imaging Center Meeting - November 14-15, 2019 - Zürich, Switzerland

Invitation

The Advanced Imaging Centers meet once a year to discuss the future of imaging software for life sciences. The venue for this year's meeting is Hotel Spirgarten, Lindenplatz 5, 8048 Zürich, Switzerland . For two days the members pool their view of trends and needs in the rapidly evolving field to shape the evolution of Bitplane’s Imaris software.

As an AIC please have a look at the agenda, fill in the registration details below.

Agenda

Pre-meeting Preparation

There are two things to do in preparation of the meeting:

1) Bring an Image to Zürich

At this meeting in Zürich once again you get the chance to work with a developer. Please prepare! We want you to bring some of your images that you really really would like to analyze but for some reason you can’t analyze them. Or something about the analysis is a big pain. Bring your images on a USB drive. Please choose the images and the topic such that you can say: “If Imaris could solve this problem it would really help me or my colleagues very much!”

2) Complete the following sentences in preparation for the meeting:

  • “Today Imaris is … “
  • “In 5 years I would like Imaris to … “
  • “The 3 most painful things about Imaris are ... “
  • “The competition (Fiji, Arivis, Amira, Aivia…) is quite good at … “
  • “What I like a lot about Imaris is …”

3) Read through the list of topics below and come up with some questions and ideas:

  • Topic 1: Super Easy to Use App
    Imaris has a good reputation for its ease of use. We could build on that and try to create one or more “Super Easy to use Apps” that answer a biological question in such simple steps that no instructions are necessary. To achieve this such Apps will have to be very specific about the imaging situation and the biological question. For example we could have a “Endocytosis App” that takes a two-channel time series and reports whether channel A “gobbles up” channel B or vica versa as time passes. It could then output whether endocytosis is happening, show a graph of it over time, and report some measurements that describe the endocytosis and some numbers that assess the validity of the conclusion that endocytosis is happening. What other Apps come to your mind that are simple enough so that we can more or less fully automatically produce an answer and create a report for the user? Create a list of several candidate Apps and try to specify the necessary prerequisites and sketch a report that Imaris should automatically generate.
  • Topic 2: Downstream from Object Detection. What is wrong with Vantage?
    We see from our usage data that the Vantage tool is very very rarely used. Users don’t do scatterplots of measurements in Imaris. We invite you to speculate why this is the case and what we should do for the future? Products like Olympus ScanR have scatterplots seemingly well integrated into their product. ScanR let’s users view scatterplots of measurement values and allows them to draw regions to select groups of objects. Is this “gating” the most important use case for a scatterplot? Should Imaris have a 2D scatterplot with gating functionality as part of the filter tabs in the creation wizards? Should the Vantage view be visible alongside the surpass view as a tool for selecting objects? Something keeps users from using vantage. In your group, speculate what the reasons are and what we could change. If you feel like watching a movie on Vantage as it was originally built by John Tukey in 1973:
  • Topic 3: Multiplexing Challenges
    When the same sample is imaged to measure fluorescence of more than just 3 different markers a number of challenges arise. If the sample was imaged multiple times the fusion of these different images is an obvious challenge. Another is the visualization and analysis of images with many channels. Which are the challenges that arise? Create a list of challenges in your group. How can we contribute to overcoming them? Either on the acquisition side with Andor’s microscopy software or on the analysis side with Imaris?
  • Topic 4: Smart Acquisition
    Some smartphone cameras have a so-called Smile Shutter ™: “The camera detects up to five faces and selects one face for smile detection and auto focus. When the selected face smiles, the camera automatically takes a photo”. For microscopy image acquisition it might also be useful to 1 start a recording on a specific event. Or to stop recording at a specific event. Or in a timeseries to record a “marker” at a specific event. In your group brainstorm a list of events that you think would be particularly helpful to detect and what you would like to automatically happen on detection of the respective event. Once you have a list of possible events think about what logic might be involved to achieve full automation. In the smartphone example the smartphone automatically selects one out of five faces and waits for the smile on that face. While this sounds extremely specific and perhaps awkward something in this direction is necessary to achieve automation. In microscopy it might not be so useful to automatically select one cell out of many and wait for that to divide. But what would be a useful logic? What is the reason for doing smart acquisition? Is it smaller files on disk? Is it shorter acquisition times? Is it better navigation of images post-acquisition?

Day 1 - Thursday, November - 14 - 08:30 - 17:30

08:30 - 10:30

  • AIC present their work (15 min each)

10:30 - 11:00: Coffee Break

11:00 - 12:30: AIC Presentations continued

  • AIC present their work (15 min each)

12:30 - 13:30: Lunch

13:30 - 16:30: Workgroups and Discussions

16:30 - 18:30: Challenge a Developer

19:00: Dinner

Day 2 Friday, November 15 - 08:30 - 16:30

8:30 - 10:30: Workgoup Presentations

  • Presentations from workgroups

10:30 - 11:00: Coffee Break

11:00 - 12:30: Imaris Roadmap

  • Presentations from “Challenge a Developer”

12:30 - 13:30: Lunch

13:30 - 14:30: Imaris Roadmap

  • Imaris Roadmap

14:30-15:30: Discussion. Open Topics.

  • Open Session

15:30-16:30: Conclusions

  • Peter tries to summarize

Hotels

Please book your own accommodation. There are many hotels in the area. For your convenience here is a random selection of hotels that are close to the venue:

Registration









Contact

Eduardo Rosa Molinar
AIC Chairman
University of Kansas
787-356-4499
erm@ku.edu

Peter Majer
Head of Imaris Development
Bitplane
peter@bitplane.com

Susan Cummings
Global Events Co-ordinator
Andor Technology
+44 (28) 9023 7126 ext. 2727
s.cummings@andor.com

Get in Contact

Bitplane AG
Badenerstrasse 682
CH-8048
Zurich
Switzerland

 

Peter Majer
peter@bitplane.com

 

Meredith Price
meredith.price@bitplane.com

 

T: +41 44 430 11 00
F: +41 44 430 11 01
E: welcome@bitplane.com