In neuroconductor-devel-releases/MNITemplate: MNI MRI Template

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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, jeanphi@mail.med.upenn.edu

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

Software status

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

1. Introduction {#id-section1}

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

2. Reading the data into R {#id-section2}

library(MNITemplate)
readMNI("T1")

3. Files {#id-section3}

| 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")|