applyEmptyImageDimensions
                        Apply Subsetting from Empty Image Dimensions
aux.file-methods        Extract Image aux.file attribute
bitpix-methods          Extract Image bitpix attribute
breaker                 Find Breaks for nifti Image Ploting
cal.max-methods         Extract Image cal.max attribute
cal.min-methods         Extract Image cal.min attribute
check_file              Wrapper for getForms with filename
check_nifti-methods     Check if nifti image or read in a nifti image
check_outfile           Check output filename
checkimg-methods        Force object to filename
checknii-methods        Force object to filename with .nii extension
checkout                Determine of Q and S forms are consistent
cog                     Image Center of Gravity
colorbar                Add a colorbar to an ortho2 object
copyNIfTIHeader         Copy NIfTI Header to an array
data_type-methods       Extract Image data_type attribute
datatype                Change Data type for img
datatype-methods        Extract Image datatype attribute
descrip-methods         Extract Image descrip attribute
dim_-methods            Extract Image dim_ attribute
double_ortho            Double Orthographic Display
dropEmptyImageDimensions
                        Drop Empty Image Dimensions
fast                    FSL FAST
fast.help               FAST help
file_imgext             Get Image file extension
finite_img-methods      Finite Image
flirt                   Register using FLIRT
flirt.help              FLIRT help
flirt_apply             Apply Warp from FLIRT
fnirt                   Register using FNIRT
fnirt.help              FNIRT help
fnirt_with_affine       Register using FNIRT, but doing Affine
                        Registration as well
fnirt_with_affine_apply
                        Applies FLIRT then FNIRT transformations
fsl_anat                FSL Anatomical Processing Script
fsl_anat.help           fsl_anat help
fsl_applywarp           Apply Warp from FNIRT
fsl_applywarp.help      FSL applywarp help
fsl_atlas_dir           Get FSL's Standard Data Directory
fsl_biascorrect         FSL Bias Correct
fsl_data_dir            Get FSL's Data Directory
fsl_slicetimer          FSL Slice Timing Correction
fsl_std_dir             Get FSL's Standard Data Directory
fslabs                  Absolute Value Image using FSL
fslabs.help             fslabs Help
fslacos                 Arc Cosine Transform Image using FSL
fslacos.help            fslacos Help
fsladd                  Add Images using FSL
fsladd.help             fsladd Help
fslasin                 Arc Sine Transform Image using FSL
fslasin.help            fslasin Help
fslatan                 Arc Tangent Transform Image using FSL
fslatan.help            fslatan Help
fslbet                  Use FSL's Brain Extraction Tool (BET)
fslbet.help             Help for FSL BET
fslbin                  Binarize Image using FSL
fslbin.help             fslbin Help
fslbinv                 Binarized Inverse Image using FSL
fslbinv.help            fslbinv Help
fslchfiletype           FSL Change file type
fslchfiletype.help      fslchfiletype help
fslcmd                  FSL Command Wrapper
fslcog                  Image Center of Gravity (FSL)
fslcos                  Cosine Transform Image using FSL
fslcos.help             fslcos Help
fslcpgeom               FSL Copy Geometry
fslcpgeom.help          fslcpgeom help
fsldilate               Dilate image using FSL
fsldir                  Get FSL's Directory
fsldiv                  Divide Images using FSL
fsldiv.help             fsldiv Help
fsledge                 Edge Strength Image using FSL
fsledge.help            fsledge Help
fslentropy              Image Mean Entropy
fslerode                Erode image using FSL
fslerode.help           fslerode Help
fslexp                  Exponentiate Image using FSL
fslexp.help             fslexp Help
fslfill                 Fill image holes
fslfill.help            fslfill Help
fslfill2                Fill image holes with dilation then erosion
fslgetorient            FSL Orientation Wrappers
fslhd                   Get NIfTI header using FSL
fslhd.help              FSLhd help
fslhd.parse             Parse FSL Header
fslhelp                 Wrapper for getting fsl help
fslindex                Index Image using FSL
fslindex.help           fslindex Help
fsllog                  Log Transform Image using FSL
fsllog.help             fsllog Help
fslmask                 Mask image using FSL
fslmask.help            fslmask Help
fslmaths                FSL Maths
fslmaths.help           FSL Maths Help
fslmean                 Image Mean
fslmerge                Merge images using FSL
fslmerge.help           FSLMerge help
fslmul                  Multiply Images using FSL
fslmul.help             fslmul Help
fslnan                  Replace NaNs in Image using FSL
fslnan.help             fslnan Help
fslnanm                 Mask NaNs in Image using FSL
fslnanm.help            fslnanm Help
fslorient               FSL Orient
fslorient.help          fslorient help
fslorienter             Wrapper for FSL Get Orientation
fslrand                 Add Random Uniform Noise Image using FSL
fslrand.help            fslrand Help
fslrandn                Add Random Standard Guassian Noise Image using
                        FSL
fslrandn.help           fslrandn Help
fslrange                Get range of an image
fslrecip                Reciprocal Image using FSL
fslrecip.help           fslrecip Help
fslrem                  Modulus Remainder of 2 Images using FSL
fslrem.help             fslrem Help
fslreorient2std         FSL Orient to MNI
fslreorient2std.help    fslreorient2std help
fslroi                  FSL ROI
fslsd                   Image Standard Deviation
fslsin                  Sine Transform Image using FSL
fslsin.help             fslsin Help
fslsmooth               Gaussian smooth image using FSL
fslsmooth.help          fslsmooth Help
fslsqr                  Square Image using FSL
fslsqr.help             fslsqr Help
fslsqrt                 Square Root Image using FSL
fslsqrt.help            fslsqrt Help
fslstats                FSL Stats
fslstats.help           FSL Stats Help
fslsub                  Subtract Images using FSL
fslsub.help             fslsub Help
fslsub2                 Subsample image by factor of 2
fslsub2.help            fslsub2 Help
fslsum                  FSL Sum
fslswapdim              FSL Swap Dimensions
fslswapdim.help         fslswapdim help
fsltan                  Tangent Transform Image using FSL
fsltan.help             fsltan Help
fslthresh               Threshold an image
fslthresh.help          fslthresh Help
fslval                  Get value from FSL header
fslval.help             fslval help
fslview                 Open image in FSLView
fslview.help            FSLView help
fslvol                  FSL Volume in mL (or cubic centimeters)
fslvolume               Image Volume
get.fsl                 Create command declaring FSLDIR
get.fsloutput           Determine FSL output type
get.imgext              Determine extension of image based on
                        FSLOUTPUTTYPE
getEmptyImageDimensions
                        Get Empty Image Dimensions
getForms                Get Q and S Forms of orientation matrix
have.fsl                Logical check if FSL is accessible
intent_code-methods     Extract Image intent_code attribute
intent_name-methods     Extract Image intent_name attribute
intent_p1-methods       Extract Image intent_p1 attribute
intent_p2-methods       Extract Image intent_p2 attribute
intent_p3-methods       Extract Image intent_p3 attribute
magic-methods           Extract Image magic attribute
maskEmptyImageDimensions
                        Make Mask from Empty Image Dimensions
mask_img                Mask nifti Image
mcflirt                 FSL Motion Correction
mcflirt.help            MCFLIRT help
melodic                 Run MELODIC ICA
melodic.help            MELODIC help
mni_fname               Construct MNI Filename
mni_img                 Read MNI Filename
multi_overlay           Create Multi-Image Plot with Overlays
newnii                  Resets image parameters for a copied nifti
                        object
niftiarr                Make new nifti from array
nii.stub                Grab nii file stubname
ortho2                  Orthographic Display, added options
ortho_diff              Plot differences for Prediction and Gold
                        Standard
pixdim-methods          Extract Image pixdim attribute
qform,character-method
                        Extract NIfTI 3D Image Orientation
qform_code-methods      Extract Image qform_code attribute
readNIfTI2              readNIfTI with default non-reoirientation
replace_dropped_dimensions
                        Remake Dropped Dimensions
rescale_img             Image Rescaler
robust_window           Window image based on quantiles of Image
scl_inter-methods       Extract Image scl_inter attribute
scl_slope-methods       Extract Image scl_slope attribute
sform_code-methods      Extract Image sform_code attribute
sizeof_hdr-methods      Extract Image sizeof_hdr attribute
slice_code-methods      Extract Image slice_code attribute
slice_duration-methods
                        Extract Image slice_duration attribute
slice_end-methods       Extract Image slice_end attribute
slice_start-methods     Extract Image slice_start attribute
susan                   FSL SUSAN noise reduction
susan.help              FSL SUSAN Help
tempimg                 Create temporary nii.gz file for FSL
toffset-methods         Extract Image toffset attribute
vox_offset-methods      Extract Image vox_offset attribute
window_img              nifti image windower
writeNIfTI2             writeNIfTI with default non-reoirientation
xyz                     Image Center of Gravity Wrapper
zero_pad                Zero pads an image
zlimmer                 Find Image z-limits
zscore_img              Get Z-score over a margin of an img
