User Tools

Site Tools


Sidebar

Top
Seminar
Courses
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

@camachodejay Basics of basics. It seems that nano particle super structure and ctystal alignments quantifications… https://t.co/MJVwyJIvP9
About 4 hours, 44 mins ago by: Kota Miura (@cmci_)

cmci_ avatar

ImageJ workshop in Konstanz, 2/3 people from chemistry department https://t.co/DQbVl8sXj4
About 6 hours, 31 mins ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @gringene_bio: Do you have a colour image with a horizontal white ruler in it, and really wish there was some way to automatically set t…
About 17 hours, 41 mins ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @dn_mason: @DrYaraSanchez are you aware of anyone who has, or is working on porting the code from your LOCO-EFA paper into #imageJ ? Wo…
About 2 days, 1 hour ago by: Kota Miura (@cmci_)

cmci_ avatar

@hpke1980 @NEUBIAS_COST @broadinstitute @DrAnneCarpenter congrats!
About 6 days, 6 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @hpke1980: Nikita Moshkov from #BIOMAGlab received a @NEUBIAS_COST short grant fellowship to visit the @broadinstitute , @DrAnneCarpent
About 6 days, 6 hours 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)