Image Analysis Workshop

Dear participants,

Please provide us with your feedback, so we can learn and improve ourselves: feedback-form

kind regards,

BIF-team


 

Dear all,

The BioImaging Facility team organizes an image analysis workshop on June 13 and 14, 2019:

With this workshop we aim to raise awareness to think about your analysis before you acquire data; introduce you to some concepts of image analysis and flash the main available tools that we offer from the BioImaging Facility.

We also provide the opportunity to sign up for a 1 hour Q&A session on the workstation on June 14th for some initial troubleshooting. Please find the putative schedule further below.

  • lectures only: a brief email would suffice (just to make sure that we have space)
  • ImageJ/FIJI macro-hands on: bring your own laptop and make sure to have FIJI installed! link
  • workstation Q&A: please indicate shortly what you would like to do – email

SCHEDULE:


June 13, 2019

  • lectures (Foyer seminar room Ground floor / Office Bldg West)

09.00-09.30 – Intro: workshop aims and resources at IST Austria (GaKr)

09.30-10:25 – What is a digital image image (ChSo): pixel / gray value / 8-32 bit / histogram / thresholding / filters

10:35-11:30 – brief intro to Image J (RoHa): find your way around in Image J / FIJI website

11:30-12:30 – lunch

12:30-13:25 – brief intro to Ilastik: image classification, segmentation and analysis (ChSo)

13:35-14:25 – Deconvolution (Huygens) & Airy scan (paper) processing (DoMi)

14:35-15:25 – Image-J / FIJI: useful plug-ins (RoHa)

15:35-16:30 – Intro to Imaris: modules and batch processing – new features in Imaris 9.3  (MoGo)


June 14, 2019

  • hands on: Big Seminar room Ground floor / Office Bldg West
  • lectures: Big Seminar room Ground floor / Office Bldg West
  • hands on Q&A:   BFB – i04.EG.035 – workstations 2, 4, 6, 7

09.30-11.00 – hands on: the basics of Image J macro programming (NaDa): website – make sure to install FIJI beforehand!!

11:00-12:00 – Image analysis with Content-Aware Image Restoration (C.A.R.E.) machine learning approaches (ChSo / RoHa): paper & website

12:00-13:00 – lunch

13:00-14:00 – Q&A @ workstation slot 1: WS 2, WS 4, WS6, WS7

14:00-15:00 – Q&A @ workstation slot 2: WS 2, WS 4, WS6, WS7

15:00-16:00 – Q&A @ workstation slot 3: WS 2, WS 4, WS6, WS7


 

PARTICIPANTS image analysis workshop 1 – 2019:

name lectures Image-J macro Q&A workstation
registrations / availability 29 / 30 
20 /20
1 / 12
1 Alexander Johnson y
2 Alba JUANES GARCIA y
3 Aysan Cerag Yahya y
4 Barbara Oliveira y y
5 Bernadette Basilico y y
6 Bettina   Zens y y
7 Giselle CHEUNG y y
8 Julia MICHALSKA y y
9 Julian STOPP y
10 Kasumi Kishi y y
11 Katalin Szigeti y y
12 Katarina Bartalska
13 Katarzyna Kumicz y
14 Marcia y y
15 Lena Schwarz y
16 Lisa Knaus y
17 Michelle Gallei y
18 Mojtaba Tavakoli y y
19 Nathalie Agudelo Dueñas y
20 Nikola Canigova y y
21 Patricia RODRIGUES y
22 Peng Xia y y PIV
23 Philipp Radler y
24 Phillipp Velnecky y y
25 Silvia Caballero y
26 Steffi Wachner y
27 Suyash Naik y y Imaris / Ilastik
28 Verena HÜBSCHMANN y y
29 Zoe Dobler y y
30 Medina Kordkut y
31 Robert Beattie y y

32 Jonna Hannele ALANKO y

33

34

y = confirmed registration for the listed workshop topic