Detects spots for one file — find.spots.file • nucim

Detects spots for one file

find.spots.file(
  file,
  dir,
  color,
  thresh = NULL,
  thresh.auto = FALSE,
  thresh.quantile = 0.9,
  filter = NULL,
  cores = 1
)

Arguments

file: file
dir: directory for results
color: which color, images have to be in folder with color name
thresh: threshold
thresh.auto: Logical. Find threshold automatically?
thresh.quantile: numeric. use simple
filter: 2d-filter to use before spot detection
cores: number of cores to use in parallel (with parallel package only)

Value

spot images in spot-color/, number of spots as txt files in spot-color/