Extract colour from user defined areas.
remotes::install_github("mpio-be/colorZapper")require(colorZapper)
# path to image directory
dir = system.file(package = "colorZapper", "sample")
# open/create a colorZapper file
cz_file = tempfile(fileext = '.sqlite')
CZopen(path = cz_file)
# associate files with the opened file
CZaddFiles(dir)Interactively define points or polygons
# define 1 point per image
CZdefine(points = 1)
# check status
CZshowStatus()
# over-write points defined for Falco_peregrinus (id = 2)
CZdefine(points = 1, what = 2)
CZshowStatus()
# define points using marks
# 2 points per mark = 4 points per image
# 'what' is set so only particular images are going to be loaded
CZdefine(points = 1, marks = c("wing", "tail") , what = 4)
CZshowStatus()
#define polygons: 1 polygon per mark
# see help(locator) for info on how to draw on an R graphic.
CZdefine(polygons = 1, marks = c("wing", "tail"), what = 3 )Extract RGB values from Regions of Interest
CZextractROI()
# fetch data
d = CZdata(what = 'ROI')
Extract RGB values from the entire image (batch mode).
CZextractALL()
d = CZdata(what = 'ALL')- CZ works better outside Rstudio so just run it from a plain R console.
- Data are saved to a database file on your disk so you can stop and resume your work any time.