orthographic-methods: Methods for Function 'orthographic' in Package 'dcemriS4'

In neuroconductor-releases/oro.nifti: Rigorous - 'NIfTI' + 'ANALYZE' + 'AFNI' : Input / Output

Description

Produce orthographic display for nifti, anlz and afni objects.

Usage

orthographic.nifti(
  x,
  y = NULL,
  xyz = NULL,
  w = 1,
  col = gray(0:64/64),
  col.y = hotmetal(),
  zlim = NULL,
  zlim.y = NULL,
  crosshairs = TRUE,
  col.crosshairs = "red",
  xlab = "",
  ylab = "",
  axes = FALSE,
  oma = rep(0, 4),
  mar = rep(0, 4),
  bg = "black",
  text = NULL,
  text.color = "white",
  text.cex = 2,
  ...
)

orthographic(x, ...)

## S4 method for signature 'nifti'
orthographic(
  x,
  y = NULL,
  xyz = NULL,
  w = 1,
  col = gray(0:64/64),
  col.y = hotmetal(),
  zlim = NULL,
  zlim.y = NULL,
  crosshairs = TRUE,
  col.crosshairs = "red",
  xlab = "",
  ylab = "",
  axes = FALSE,
  oma = rep(0, 4),
  mar = rep(0, 4),
  bg = "black",
  text = NULL,
  text.color = "white",
  text.cex = 2,
  ...
)

## S4 method for signature 'anlz'
orthographic(
  x,
  y = NULL,
  xyz = NULL,
  w = 1,
  col = gray(0:64/64),
  col.y = hotmetal(),
  zlim = NULL,
  zlim.y = NULL,
  crosshairs = TRUE,
  col.crosshairs = "red",
  xlab = "",
  ylab = "",
  axes = FALSE,
  oma = rep(0, 4),
  mar = rep(0, 4),
  bg = "black",
  text = NULL,
  text.color = "white",
  text.cex = 2,
  ...
)

## S4 method for signature 'array'
orthographic(x, ...)

## S4 method for signature 'afni'
orthographic(x, ...)

Arguments

x	is an object of class nifti or similar.
y	is an object of class nifti or similar for the overlay.
xyz	is the coordinate for the center of the crosshairs.
w	is the time point to be displayed (4D arrays only).
col	is grayscale (by default).
col.y	is hotmetal (by default).
zlim	is the minimum and maximum ‘z’ values passed into image.
zlim.y	is the minimum and maximum ‘z’ values passed into image for the overlay.
crosshairs	is a logical value for the presence of crosshairs in all three orthogonal planes (default = TRUE).
col.crosshairs	is the color of the crosshairs (default = red).
xlab	is set to "" since all margins are set to zero.
ylab	is set to "" since all margins are set to zero.
axes	is set to FALSE since all margins are set to zero.
oma	is the size of the outer margins in the par function.
mar	is the number of lines of margin in the par function.
bg	is the background color in the par function.
text	allows the user to specify text to appear in the fourth (unused) pane.
text.color	is the color of the user-specified text (default = “white”.
text.cex	is the size of the user-specified text (default = 2).
...	other arguments to the image function may be provided here.

Methods

x = "afni"

Produce orthographic display for x.

x = "anlz"

Produce orthographic display for x.

x = "array"

Produce orthographic display for x.

x = "nifti"

Produce orthographic display for x.

Author(s)

Brandon Whitcher [e-mail]

See Also

image-methods, overlay-methods

neuroconductor-releases/oro.nifti documentation built on Jan. 1, 2021, 11:40 a.m.