User Tools

Site Tools


Sidebar

Top
Seminar
Courses -2016
Courses 2018-
Textbooks
Documents
Downloads (-2016)
Downloads (2016-)
Weblog
RSS aggregates
Discussions
Archives


EMBL BioImage Data Analysis

EuBIAS

NEUBIAS

—- Contact
CMCI Alumni
ALMF
EMBL Heidelberg
EMBL Intranet


Popularity Ranking


Timeline of @cmci_

cmci_ avatar

RT @haesleinhuepf: Upgrading #ImageJ #autocomplete: Suggestions for user defined functions and variables - because people asked for it. Fr…
About 17 hours, 14 mins ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @biorxivpreprint: Myosoft: an automated muscle histology analysis tool using machine learning algorithm utilizing FIJI/ImageJ software.…
About 17 hours, 14 mins ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @ltuckerkellogg: Several great Computation Biology postdoc jobs have been posted at https://t.co/ahPafWjyVP in machine learning, dynamic…
About 2 days, 22 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @JCellBiol: Cross-linker–mediated regulation of #actin network organization controls tissue #morphogenesis, say Krueger et al @embl http…
About 4 days, 23 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @Dev_journal: "QuBiT: a quantitative tool for analyzing epithelial tubes reveals unexpected patterns of organization in the Drosophila t…
About 5 days ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @ijmacros: Check out our paper in the Journal of Neuroscience Methods - 'A Versatile Macro-Based Neurohistological Image Analysis Suite…
About 5 days ago by: Kota Miura (@cmci_)
blogtng:2010-05-06:bleach_correction_2

Bleach Correction (2)

As I test through different method further

  1. Phair's method (or simple ratio)
  2. Exponential decay fitting (or exponential ratio, I call)
  3. Histogram streching,

all these methods are not really satisfactory. so I kept on searching for other methods and I tested something not used often, which is called “Histgram Matching”, and it seems to work better. Bleached images are better be blurred a bit. I might try implementing it as another method for bleaching correction.

Followings are links related to this method, which I referred to.

Histogram equalizaiton theory (by R. Fisher, S. Perkins, A. Walker and E. Wolfart.@ Image Processing Learning Resources).

I also refrred to Digital Image Processing using Matlab“ but it was too simply formulated (and, the matlab function which should be used is indicated but too short).

Paper: “A statistical approach for intensity loss compensation of confocal microscopy images”, Gopinath et al (2007) J. of microscopy ( Link). This paper tries to correct the acquistion bleaching while the image itself is changing a lot (the sample seems to be internalizing cell surface recepter, so from diffuse signal to dotty signals). In case of sequences with less changes in signal shape, the problem is more simple and straightforward, but such dynamic version should be already in our sight. (by the way, I am always amazed by works which Luby-Phelps is involved in. When I found the name on this paper, amazed again…).

Point Operations
CMPUT 206, Instructor: NilanjanRay
(powerpoint slides in PDF)

Java library: source for historam matching is in Burger & Burge website, chapter 5.
"Digital Image Processing: An algorithmic introduction uing Java"

blogtng/2010-05-06/bleach_correction_2.txt · Last modified: 2016/05/24 05:46 (external edit)