Adam @ Rorth lab

fragment of macro sent for dealing with splitted images after "RGB split" in imageJ.

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

Carolina @ CBB Pepperkok

EM scale problem

using the scale attached to EM micrograph, same cell has different areas in different zoom (260x and 1600 x). difference is about 25% (1600x would end up in smaller appearance).

Solution is only to measure some constant scale such as grid, or beads, and plot a calibration curve for proper scales.

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.

Helio @ Antony

Told how to subtract avaraged frame from a stack.

Janina : Fly localization 3

Discussed 30 minutes and Change strategy: just count the number of overlapping dots.
--> total number of dots / brain.

Marianne @ Surray lab 2

Planned for the y-axis adding up Profile mapping.

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

Daniela@ Griffith

cell migration activity

--> make it simple
step1: count by category for spread cells
a. stopped
b. pivot
c. migration

step2: displacement activity
take 4 frames out of 17hrs sequence, and measure the displacement during every 5 hours.

Carolina @ CBB

1. Scale problem: ImageJ area conversion might not be reliable (or maybe too complicated)
--> told how to convert pixel area to um2.

2. ROIs accumulated in the ROI manager are used sequentially and intensity is measured
--> requires macro programming.

3. EM scales --> zooming and scale adjustment --> this should be checked by EM people.

4. Photoshop scale:

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

Janina : Fly localization 2

Check images from two different conditions by colocalization plugin. Initial idea to "measure the distance" between spots would be not valid since the signals are diffuse. --> design an analysis protocol by tomorrow.

Janina : Fly localization

2 channel z-stack, trying to find the degree of colocalization.
Problem is that one signal is dotty whereas the other is diffuse.

--> compare the wild type and conditioned.
--> will discuss tomorrow again, with merged z-stacks and projections. (10 each)