README.md

MNITemplate

The goal of MNITemplate is to provide the MNI Template of T1-weighted MRI imaging from http://www.bic.mni.mcgill.ca/ServicesAtlases/ICBM152NLin2009. In addition to the standard template, the image has been segmented into gray matter, white matter, and cerebrospinal fluid (’CSF’) using the ‘FAST’ algorithm from ‘FSL’ https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FAST..

Creator: Jean-Philippe Fortin, [email protected]

Authors: Jean-Philippe Fortin, John Muschelli, Russell T. Shinohara

Software status

| Resource: | Travis CI | | ----------- | ---------------------------------------------------------------------------------------------------------------------------------------------------- | | Platform: | Linux | | R CMD check | Build status |

Table of content

1. Introduction

The MNI152 template that is included with FSL: https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Atlases

2. Reading the data into R

library(MNITemplate)
readMNI("T1")

3. Files

| File | Description | Reader | | ---------------------------------------- | ------------------------------------------------------- | ---------------------------------- | | MNI152_TI_1mm.nii.gz | T1-w MNI Template, 1mm | readMNI("T1") | | MNI152_TI_1mm_Brain.nii.gz | T1-w MNI Template, 1mm, skull stripped | readMNI("Brain") | | MNI152_TI_1mm_Brain_Mask.nii.gz | T1-w MNI Template, 1mm, brain mask | readMNI("Brain_Mask") | | MNI152_TI_2mm.nii.gz | T1-w MNI Template, 2mm | readMNI("T1", res="2mm") | | MNI152_TI_2mm_Brain.nii.gz | T1-w MNI Template, 2mm, skull stripped | readMNI("Brain", res="2mm") | | MNI152_TI_2mm_Brain_Mask.nii.gz | T1-w MNI Template, 2mm, brain mask | readMNI("Brain_Mask", res="2mm") | | Tissue Segmentation: | | | | MNI152_TI_1mm_Brain_FAST_seg.nii.gz | FSL FAST tissue classes (1=CSF, 2=GM, 3=WM) for 1mm res | readMNISeg() | | MNI152_TI_2mm_Brain_FAST_seg.nii.gz | FSL FAST tissue classes (1=CSF, 2=GM, 3=WM) for 2mm res | readMNISeg(res="2mm") |



neuroconductor-devel-releases/MNITemplate documentation built on Feb. 14, 2020, 12:31 p.m.