![]() ![]() Macro for an example and more documentation. Or "flat-top", or may be omitted (meaning "none"). WindowType can be "none", "Hamming", "Hann", Returns an array holding the minima positions.Ĭalculates and returns the Fourier amplitudes of array. 'edgeMode' argument: 0=include edges, 1=exclude edges(default), 2=circular array. With v1.51n and later, there is an optional 'Tolerance' is the minimum amplitude difference Returns an array holding the peak positions Returns an array containing the elements of 'array' that contain 'filter',Įnclose the filter in parans to do regular expression matching. Returns a version of array where the element with theĪssigns the specified numeric value to each element of array. In the array that contain value have been deleted Returns a version of array where all numeric or string elements Returns a new array created by joining two or more arrays or values Returns the inverse cosine (in radians) of n. Once again, thank you very much in trying helping me. also here, i don’t care about the total amount of bacteria- only how many of them are red and green so i can determine the ratio between them in the 3D structures. However, my secondary goal is to count, if possible, those 3D structures (as you said “stacked bacteria”). It worth to emphasize that i am using a fluorescence microscopy (Nikon) with Dual Band Excitation Filter Sets which mean that i get both fluorescence emission wavelength of the red and green channels together. and i don’t know if it is good, just from basic logic. That is why i started my protocol in imageJ in “image - >color - > split channels” and discarded the blue channel. If that requires two sets of running scripts/ protocols - that is what i will do (the thing here is to avoid a situation that red bacteria will count as green and vis versa). By “separately” i mean that i need the number of just green bacteria and the number just red bacteria. Please note that my primary goal is to count the red and green bacteria (those which are one next to another) “separately”, and by that will know the ratio between them in the picture. In your answer, I am not sure what the “YellowResults.csv (18.8 KB)” and “RGB Results.csv (40.1 KB)” files means… since i am only interested in the red and green channels (and count). I know this is very challenging, especially for all the 3D structures (lump of bacteria - which usually have green and red colors together - this kind of example marked in gold). Of course, the marked area is just an example, i wish this counting will suitable for all the picture. My goal is to produce a protocol that, after ImageJ analysis, will give me the results (for the marked field) of: This image is identical to the one you did the analysis, except there i marked green bacteria in purple and red bacteria in blue. To further clarify my question i am uploading one more image (named “9_clarify my question”). It is very hard for me to understand what you did here but i think you are in the right way. Secondly, as for the analysis - it seems like you took image number 9 ( I uploaded tree images with different numbers - 9, 11 and 17) for analysis, am i correct? I welcome all suggestions from the forum members,įirst, i wanted to thank you for your ambition to help me. I mostly interested in counting those individual bacteria, but if there will be a protocol that I can count those 3D structures of bacteria, in addition, it will be the best. One last thing - bacteria can generate 3D structures and assemble together (one bacteria above other bac teria) or can be by themselves (one bacteria next to other). Moreover, please note that bacteria size in about 2 microns ( which is equal to 13 pixels in this picture) and their shape can vary from ellipse to rings. My starting point is to press “Color – > split channels” ( this way I can discard the blue channel that I am not interested in). but I couldn’t find or design a protocol that will count all I am using a fluorescence microscopy (Nikon - Dual Band Excitation Filter Sets) in order to get this RGB pictures. Please see the attached pictures as my representative pictures for analysis. I am interested in finding the actual number of all red bacteria (dead) and Live (green) bacteria. (Link to Manuals & protocols: LIVE/DEAD™ BacLight™ Bacterial Viability Kit, for microscopy)īriefly, This assay stain Live bacteria in Green as well as dead bacteria in Red. I am using a Live\ dead staining protocol. ![]()
0 Comments
Leave a Reply. |
AuthorWrite something about yourself. No need to be fancy, just an overview. ArchivesCategories |