MRIQC: Automated Quality Control and visual reports for Quality Assessment of structural (T1w, T2w) and functional MRI of the brain
# Load FSL
$ module load Image_Analysis/FSL5.0.11
# Load AFNI
$ module load Image_Analysis/AFNI
# Load ANTS
$ export ANTSPATH=/trdapps/linux-x86_64/bin/ants/bin
$ export PATH=${ANTSPATH}:$PATH
# Load mriqc
$ module load Image_Analysis/mriqc
# Run mriqc
$ mriqc