gradient_plot: Plot cerebellar activation map as a function of cerebellar...

In spisakt/gradientplot: Plot fMRI activation patterns in gradient space

Description

The only function in this package is the plotting function 'gradient_plot'. With default parameters it plots activation in the cerebellar gradient-space, as published by Guell et al. (2018, eLife), however it is easy to use it for plotting with other brain gradients (at leasst two). This is a developer version, use with caution.

Usage

gradient_plot(map, gradient1 = file.path(root_file("data"),
  "wcresult_cerebellumonly_gradient1_suit.nii"),
  gradient2 = file.path(root_file("data"),
  "wcresult_cerebellumonly_gradient2_suit.nii"),
  template = file.path(root_file("data"), "SUIT.nii"), thr = 2.3,
  template.thr = 30, slices = c(20, 25, 30, 35, 40, 45, 50, 55, 60),
  save = F, outbase = "")

Arguments

map	activation map to be plotted
gradient1	first gradient (recommended to use the default)
gradient2	second gradient (recommended to use the default)
template	template (recommended to use the default)
thr	threhold for the activation map
template.thr	template threshold (recommended to use the default)
slices	slices to save on the SUIT-space plot
outbase	filebase, withoput extenson

Examples

map=file.path("example", "spmT_0002_LinearTrend_CSm_gt_baseline.nii")
gradient_plot(map)
gradient_plot(map, save=T, outbase="test")

spisakt/gradientplot documentation built on Jan. 3, 2020, 12:17 a.m.