anatomy: Add anatomy slices

In Mouse-Imaging-Centre/MRIcrotome: Visualization Tools for 3D Volumes

Description

Adds the anatomy slices, or anything that can serve as an underlay.

Usage

anatomy(ssm, volume = NULL, low = NULL, high = NULL,
  col = gray.colors(255, start = 0), alpha = NULL, name = "anatomy")

Arguments

ssm	The slice series info, usually passed along the pipe and specified by the user
volume	3D matrix representing the volume from which to obtain slices. Can be either numbers or hexadecimal colours
low	Lower end of colour scale. Can be NULL if volume is a matrix of hexadecimals.
high	Upper end of colour scale. Can be NULL if volume is a matrix of hexadecimals.
col	The colour scale. Defaults to gray.
alpha	Value between 0 and 1, 0 being full transparent and 1 fully opaque.
name	Optional name.

Value

The slices series for continuation down the pipe.

Examples

## Not run: 
sliceSeries(nrow = 1, begin=200, end=300) %>%
  anatomy(anatVol, low=700, high=1400) %>%
  overlay(stats, low=2, high=6, symmetric = T) %>%
  legend("t-statistics") %>%
  draw()

## End(Not run)

Mouse-Imaging-Centre/MRIcrotome documentation built on Feb. 27, 2020, 1:31 p.m.