Higher values result in selection of bigger focis.
![imagej counter imagej counter](http://bitesizebio.s3.amazonaws.com/wp-content/uploads/2016/08/22105247/cell-counting-fig-3-1024x546.jpg)
Optionally, the presence of a marker can be evaluated The macro works on multichannel image stacks containing at least one channel for segmentation of objects and one channel in which the foci are counted. ina ddition intensity based colocalization measures (pearsons/manders) are calculated with the ImageJ plugin JACoP.Įxtracts regions of interest from one channel and measures the intensity on another channel. Two foci are considered as colocalized when the distance between them is at most 2 pixels. Noise parameters are adjusted for each channel. DNA damage foci are identified using the ImageJ Find Maxima command. To correct the background in the damage channels a median (r=30) filtered duplicate was substracted.
#IMAGEJ COUNTER MANUAL#
A detailed manual guiding through the single steps of the macro can be downloaded on the right side.Ĭore segmentation is done via an automatic thresholding method on the median filtered (r=2) core channel. Optionally, colocalization with a second foci channel and the presence of a marker can be evaluated. The macro works on multichannel images containing at least one channel for segmentation of objects and one channel in which the foci are counted.
![imagej counter imagej counter](https://i.ytimg.com/vi/9p1g1EHmN4Q/maxresdefault.jpg)
The macro evaluates for each cell core the presence of an optional marker, counts the foci in up to two different channels and performs a colocalization between the foci channels. Bildbeschreibung anzeigen Cells with chemically induced DNA damage sites, Red (Foci): 53BP1, Green (Marker): CyclinA, Blue (Segmentation): Hoechst staining Foci Counter / Colocalization Counter