Find spots using information from two channels
Usage
spots.combined.file(
file,
size = NULL,
voxelsize = NULL,
folder = "./",
thresh.offset = 0.1,
min.sum.intensity = 2,
max.distance = 0.5,
use.brightest = FALSE,
max.spots = 2,
full.voxel = FALSE,
output = "markers"
)Arguments
- file
File name
- size
size of img in microns, if size and voxelsize are NULL, size is determined from folder XYZmic
- voxelsize
size of voxel in microns
- folder
Folder
- thresh.offset
Thresh offset used in EBImage::thresh()
- min.sum.intensity
spots smaller than min.sum.intensity are ignored
- max.distance
use only spots with distance to other color spot smaller than max.distance
- use.brightest
Logical; use only brightest in max.distance?
- max.spots
maximum of spots (per channel), only when use brightest=TRUE
- full.voxel
Logical; output contains full voxel instead of rgb intensities
- output
output folder