retina_object: Retinal Object Construction

In yinscapital/retina-analysis-reference: Tools for plotting and analyzing vertebrate retinas.

Usage

retina_object(path, LD, ED, AL, height, width, lambda = 0.01,
  extrapolate = TRUE, spatial_res = 16, rotation_ccw = -90, IJcoords, ...)

Arguments

path	string of the retinal data directory. Should contain an xyz.csv file, falc.txt, and the saved retistruct() markup data
LD	lens diameter mm
ED	eye diameter mm
AL	axial length mm
height	counting frame height in micrometers
width	counting frame width in micrometers
lambda	Lambda value passed to the thin plate spline interpolator.
extrapolate	logical, default is TRUE so values are extrapolated to the equator.
spatial_res	resolution, default is 16 for speed.
rotation_ccw	Dorsal is up by default at -90 degrees.
IJcoords	set of imageJ coordinates, in the format of data.frame(maxX=_, maxY=_, minX=_, minY=_, deltaX=_, deltaY=_). Replace _ with recorded values within ImageJ.
...	further arguments passed to or from other methods.

Value

ret_obj retinal object (list)

data.frame with phi(latitude), lambda(longitude) and Z (cells per square millimeter).

Author(s)

Brian Cohn [e-mail]

yinscapital/retina-analysis-reference documentation built on May 22, 2019, 12:40 p.m.