FRAP analysis macro updates

Curve fitting macro for FRAP analysis is now updated to ver9, and documentation is now updated as well. see
http://www.embl.org/cmci/downloads/frap_analysis.html

code
- more importing formats for Leica data
- compatible with IgorPro ver6

documents
- corrected some formula and parameter descriptions in the document

redoing old macro

went back to preprocessing macro for tracking:

// K_SpaceEqualizer2.ijm
// attenuate the edynamic range of the image for contrast enhancing.
// started for enhancing virus+microtubule sequences.
//Kota Miura (miura@embl.de)
//050517,
//070301 modified and resavved as v2
// use algorithm2. ititially, background ROI must be defined.

Elisa @ Ellenberg GE

Added a new function for

Segmented Line ROI --> Thicker Segmented Line

by combining multiple box ROIs. (measures average intensity inside)

K_SegmentedLineWidthControlv2.ijm

particle tracker plugin interface

ImageJ Plugin "particle tracker" is excellent but the output text file is a bit complicated for direct use for further analysis. I made

(1) ImageJ macro to extract track data

k_ParticleTrackerOutputConverter.ijm

(2) Igor Procedure to import data processed in (1)

- importing and view all tracks
- filter out short tracks and view
* further implementation of other functions form previous track analysis Igor programs

K_particleTracker_OutPutReader.ipf

tested with Gaspar's sequence and works pretty well.

Elisa @ Ellenberg GE

Elisa has task to use thicker segmented line ROI, simialr to Katherine Brown's.
So I sent Elisa the same macro freshly made some days ago.

Marianne @ Surray lab 4: macro ver2

Modified that
- plotting is done separately, more flexible with number of traces and increments
- profile measurement is done for all frames, printed out to the result table.
- about 3hours.

K_YprojectionV2.ijm

Marianne @ Surray lab 3: macro

A macro was written, to get profile along x-axis over generated mask from microtubule signal channel. Took about 4 hours.

K_Yprojection.ijm

Janina : Fly localization 4: done for now

A macro called
K_2chCountOverlappedPixels.ijm
was made to count the overlapped dots, took about 3 hours.

Marianne @ Surray lab 2

Planned for the y-axis adding up Profile mapping.

1. Thresholding
or 2. manual selection of spindle edge.

Katherine's analysis 2: done

continued from
http://www.embl.de/~miura/CMCI/blg/2007/02/thicker-segmented-line-roi.html#links

So the task is to measure intensity profile along segmented line ROI with certain width in perpendicular direction. a new macro was written for this:


K_SegmentedLineWidthControl.txt