ich_segment: Predict ICH Segmentation

In neuroconductor/ichseg: Intracerebral Hemorrhage Segmentation of X-Ray Computed Tomography (CT) Images

Description

Will preprocess and predict the ICH voxels

Usage

ich_segment(
  img,
  ...,
  verbose = TRUE,
  shiny = FALSE,
  model = c("rf", "logistic", "big_rf"),
  outfile = NULL
)

ich_process_predictors(
  img,
  mask = NULL,
  save_imgs = FALSE,
  outdir = NULL,
  stub = NULL,
  verbose = TRUE,
  shiny = FALSE,
  roi = NULL,
  erode_mask = TRUE,
  ...
)

Arguments

img	CT image, object of class nifti or character filename
...	Additional options passsed to ich_preprocess
verbose	Print diagnostic output
shiny	Should shiny progress be called?
model	model to use for prediction, either the random forest (rf) or logistic
outfile	filename for native-space, smoothed, thresholded image.
mask	binary brain mask, object of class nifti or character filename
save_imgs	Logical to save all images that are created as predictors
outdir	Output directory of saved images, needs to be set if save_imgs = TRUE
stub	Basename to write image names if save_imgs = TRUE
roi	Filename of ROI, which will be transformed
erode_mask	Should the brain mask be eroded?

Value

List of output prediction/probability images

neuroconductor/ichseg documentation built on Sept. 29, 2020, 2:31 p.m.