Color My Brain: Part 1

Go ahead and color my brain

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Making a Brain Template

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Align and Bias Correct Your Brain!

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Once you’re files are ready to by preprocessed (Yes, there’s a word for the processing that takes place before the processing). They need to be aligned to a common image space. Here’s my handy script: #!/bin/bash #SBATCH --time=30:00 #SBATCH --ntasks=1 #SBATCH --nodes=1 #SBATCH --mem-per-cpu=8192M #SBATCH -o /fslhome/zach8769/logfiles/oasis_longitudinal/output_prepT1_0.txt #SBATCH -e /fslhome/zach8769/logfiles/oasis_longitudinal/error_prepT1_0.txt #SBATCH -J "prepT1_0" #SBATCH --mail-user=GalileoHumpkins@gmail.com #SBATCH --mail-type=BEGIN #SBATCH --mail-type=END #SBATCH --mail-type=FAIL export PBS_NODEFILE=`/fslapps/fslutils/generate_pbs_nodefile` export PBS_JOBID=$SLURM_JOB_ID export PBS_O_WORKDIR="$SLURM_SUBMIT_DIR" export PBS_QUEUE=batch export OMP_NUM_THREADS=$SLURM_CPUS_ON_NODE ROOT=/fslhome/GalileoHumpkins/ DATASET=${ROOT}compute/oasis_longitudinal/ TEMPLATE=${ROOT}compute/templates/MICCAI2012-Mu
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