msseg_pipeline: MSSeg Pipeline

In muschellij2/msseg: Segmentation of Lesions for Multiple Sclerosis

Description

Full Pipeline for MSSeg Challenge

Usage

msseg_pipeline(t1_pre = "3DT1.nii.gz", t1_post = "3DT1GADO.nii.gz",
  flair = "3DFLAIR.nii.gz", t2 = "T2.nii.gz", pd = "DP.nii.gz",
  gold_standard = NULL, outdir = ".", outfile = NULL,
  num_templates = 15, verbose = TRUE, runcc = TRUE, min_vol = 0.01,
  remove_files = FALSE, ...)

Arguments

t1_pre	T1-weighted pre-gad image/filename
t1_post	T1-weighted post-gad image/filename
flair	FLAIR image/filename
t2	T2-weighted image/filename
pd	Proton Density pre-gad image/filename
gold_standard	Gold Standar Lesion
outdir	Output directory
outfile	Output file for segmentation
num_templates	Number of templates used in MASS
verbose	print diagnostic messages
runcc	Run connected components
min_vol	Minimum volume of a lesion
remove_files	Remove predictor files from hard disk
...	arguments passed to process_images

Value

Final Segmentation

muschellij2/msseg documentation built on May 23, 2019, 9:53 a.m.