In jrminter/particlesizeR: Convenience functions for particle size analysis

library(knitr)
options(width = 72)

Fiji/ImageJ has a particle analysis function called Analyze Particles....

To set the parameters in a macro we need to construct a string that we will name ap_str2: This was split to two lines for easier reading. It is one long line in the original...

ap_str2 = "size=" + min_size + "-Infinity circularity=" + min_circ + "-1.00
show=Overlay display exclude add in_situ"

The min_size variable is implemented as a String as is the min_circ variable. Our focus is on the min-size variable. It is the minimum area in square microns to detect. Let's consider that we want to compute the area if we wanted to detect particles greater than or equal to 5 nm in diameter.

First, we would load the library

library(particlesizeR)

print(ecd_nm_to_area_um(5.0))

To work backwards, if we wanted to know the diameter in nm from an area cutoff of 7.854e-5 square microns, we would run

print(area_um_to_ecd_nm(7.854e-5))

jrminter/particlesizeR documentation built on June 5, 2019, 11:05 p.m.