Matlab-MSD-analysis

Mean Square Displacement for particle tracking--Brownian motion

Please set the folder to the path in Matlab

There are three methods below to measure Mean Square Displacement(MSD):

1. MSD_auto.m using imfindcircle tool to Track the center of the cell then calculate MSD and plot.

2. MSD_ImageJ_MTrack2.m using imagej preprocess the tiff image and output centers in .txt file then calculate MSD and plot.

3. MSD_manual.m because the unprecise tracking results by the two methods above, using getpts to track centers manually.

Demo

           Auto tracking                        MTrack2 tracking                     Manual tracking

                          Moving path                                                          MSD

Data

Input data are .tif seperated image sequances(please put your own data in the file /data)

In this project I provided 6 pairs of images

images without _down are particles that stays at the middle of the fluid

images with _down are particles near glass slide

Outputs

Outputs are two png images and one MPEG-4 video

1. Track results overlap on the origin image video

2. particle's moving path image

3. MSD result image