ImageJ

Import, Export, and Conversion

Read and Write Image Data from Files

imread	Read image from graphics file
imwrite	Write image to graphics file
imfinfo	Information about graphics file
nitfinfo	Read metadata from National Imagery Transmission Format (NITF) file
nitfread	Read image from NITF file
dpxinfo	Read metadata from DPX file
dpxread	Read DPX image
analyze75info	Read metadata from header file of Analyze 7.5 data set
analyze75read	Read image data from image file of Analyze 7.5 data set
interfileinfo	Read metadata from Interfile file
interfileread	Read images in Interfile format

Read and Write Image Data from DICOM Files

dicomanon	Anonymize DICOM file
dicomdict	Get or set active DICOM data dictionary
dicomdisp	Display DICOM file structure
dicominfo	Read metadata from DICOM message
dicomlookup	Find attribute in DICOM data dictionary
dicomread	Read DICOM image
dicomuid	Generate DICOM unique identifier
dicomwrite	Write images as DICOM files

High Dynamic Range Images

hdrread	Read high dynamic range (HDR) image
hdrwrite	Write Radiance high dynamic range (HDR) image file
makehdr	Create high dynamic range image
tonemap	Render high dynamic range image for viewing

Large Image Files

ImageAdapter	Interface for image I/O
isrset	Check if file is R-Set
openrset	Open R-Set file
rsetwrite	Create reduced resolution data set from image file

Image Type Conversion

gray2ind	Convert grayscale or binary image to indexed image
ind2gray	Convert indexed image to grayscale image
mat2gray	Convert matrix to grayscale image
rgb2gray	Convert RGB image or colormap to grayscale
ind2rgb	Convert indexed image to RGB image
label2rgb	Convert label matrix into RGB image
demosaic	Convert Bayer pattern encoded image to truecolor image
imbinarize	Binarize image by thresholding
imquantize	Quantize image using specified quantization levels and output values
multithresh	Multilevel image thresholds using Otsu's method
adaptthresh	Adaptive image threshold using local first-order statistics
otsuthresh	Global histogram threshold using Otsu's method
graythresh	Global image threshold using Otsu's method
grayslice	Convert grayscale image to indexed image using multilevel thresholding
im2double	Convert image to double precision
im2int16	Convert image to 16-bit signed integers
im2java2d	Convert image to Java buffered image
im2single	Convert image to single precision
im2uint16	Convert image to 16-bit unsigned integers
im2uint8	Convert image to 8-bit unsigned integers

Color

rgb2lab	Convert RGB to CIE 1976 L*a*b*
rgb2ntsc	Convert RGB color values to NTSC color space
rgb2xyz	Convert RGB to CIE 1931 XYZ
rgb2ycbcr	Convert RGB color values to YCbCr color space
lab2rgb	Convert CIE 1976 L*a*b* to RGB
lab2xyz	Convert CIE 1976 L*a*b* to CIE 1931 XYZ
xyz2lab	Convert CIE 1931 XYZ to CIE 1976 L*a*b*
xyz2rgb	Convert CIE 1931 XYZ to RGB
ycbcr2rgb	Convert YCbCr color values to RGB color space
ntsc2rgb	Convert NTSC values to RGB color space
lab2double	Convert L*a*b* data to double
lab2uint16	Convert L*a*b* data to uint16
lab2uint8	Convert L*a*b* data to uint8
xyz2double	Convert XYZ color values to double
xyz2uint16	Convert XYZ color values to uint16
iccfind	Search for ICC profiles
iccread	Read ICC profile
iccroot	Find system default ICC profile repository
iccwrite	Write ICC color profile to disk file
isicc	True for valid ICC color profile
makecform	Create color transformation structure
applycform	Apply device-independent color space transformation
imapprox	Approximate indexed image by reducing number of colors
colorcloud	Display 3-D color gamut as point cloud in specified color space
whitepoint	XYZ color values of standard illuminants

Synthetic Images

checkerboard	Create checkerboard image
phantom	Create head phantom image
imnoise	Add noise to image

Display and Exploration

Basic Display

imshow	Display image
montage	Display multiple image frames as rectangular montage
immovie	Make movie from multiframe image
implay	Play movies, videos, or image sequences
warp	Display image as texture-mapped surface
iptgetpref	Get values of Image Processing Toolbox preferences
iptprefs	Display Image Processing Toolbox Preferences dialog box
iptsetpref	Set Image Processing Toolbox preferences or display valid values

Interactive Exploration with the Image Viewer App

imtool	Image Viewer app
imageinfo	Image Information tool
imcontrast	Adjust Contrast tool
imdisplayrange	Display Range tool
imdistline	Distance tool
impixelinfo	Pixel Information tool
impixelinfoval	Pixel Information tool without text label
impixelregion	Pixel Region tool
immagbox	Magnification box for scroll panel
imoverview	Overview tool for image displayed in scroll panel
iptgetpref	Get values of Image Processing Toolbox preferences
iptprefs	Display Image Processing Toolbox Preferences dialog box
iptsetpref	Set Image Processing Toolbox preferences or display valid values

Build Interactive Tools

imageinfo	Image Information tool
imcolormaptool	Choose Colormap tool
imcontrast	Adjust Contrast tool
imcrop	Crop image
imdisplayrange	Display Range tool
imdistline	Distance tool
impixelinfo	Pixel Information tool
impixelinfoval	Pixel Information tool without text label
impixelregion	Pixel Region tool
impixelregionpanel	Pixel Region tool panel
immagbox	Magnification box for scroll panel
imoverview	Overview tool for image displayed in scroll panel
imoverviewpanel	Overview tool panel for image displayed in scroll panel
imsave	Save Image Tool
imscrollpanel	Scroll panel for interactive image navigation
imellipse	Create draggable ellipse
imfreehand	Create draggable freehand region
imline	Create draggable, resizable line
impoint	Create draggable point
impoly	Create draggable, resizable polygon
imrect	Create draggable rectangle
imroi	Region-of-interest (ROI) base class
getline	Select polyline with mouse
getpts	Specify points with mouse
getrect	Specify rectangle with mouse
getimage	Image data from axes
getimagemodel	Image model object from image object
imagemodel	Image Model object
axes2pix	Convert axes coordinates to pixel coordinates
imattributes	Information about image attributes
imgca	Get current axes containing image
imgcf	Get current figure containing image
imgetfile	Display Open Image dialog box
imhandles	Get all image objects
iptaddcallback	Add function handle to callback list
iptcheckhandle	Check validity of handle
iptgetapi	Get Application Programmer Interface (API) for handle
iptGetPointerBehavior	Retrieve pointer behavior from graphics object
ipticondir	Directories containing IPT and MATLAB icons
iptPointerManager	Create pointer manager in figure
iptremovecallback	Delete function handle from callback list
iptSetPointerBehavior	Store pointer behavior structure in graphics object
iptwindowalign	Align figure windows
makeConstrainToRectFcn	Create rectangularly bounded drag constraint function
truesize	Adjust display size of image

Geometric Transformation, Spatial Referencing, and Image Registration

Geometric Transformations

imcrop	Crop image
imresize	Resize image
imrotate	Rotate image
imtranslate	Translate image
impyramid	Image pyramid reduction and expansion
imwarp	Apply geometric transformation to image
fitgeotrans	Fit geometric transformation to control point pairs
imtransform	Apply 2-D spatial transformation to image
findbounds	Find output bounds for spatial transformation
fliptform	Flip input and output roles of TFORM structure
makeresampler	Create resampling structure
maketform	Create spatial transformation structure (TFORM)
tformarray	Apply spatial transformation to N-D array
tformfwd	Apply forward spatial transformation
tforminv	Apply inverse spatial transformation
checkerboard	Create checkerboard image
affine2d	2-D Affine Geometric Transformation
affine3d	3-D Affine Geometric Transformation
projective2d	2-D Projective Geometric Transformation
images.geotrans.PiecewiseLinearTransformation2D	2-D piecewise linear geometric transformation
images.geotrans.PolynomialTransformation2D	2-D Polynomial Geometric Transformation
images.geotrans.LocalWeightedMeanTransformation2D	2-D Local Weighted Mean Geometric Transformation

Spatial Referencing

imwarp	Apply geometric transformation to image
imregister	Intensity-based image registration
imregtform	Estimate geometric transformation that aligns two 2-D or 3-D images
imshow	Display image
imshowpair	Compare differences between images
imfuse	Composite of two images
imref2d	Reference 2-D image to world coordinates
imref3d	Reference 3-D image to world coordinates

Automatic Registration

imregister	Intensity-based image registration
imregconfig	Configurations for intensity-based registration
imregtform	Estimate geometric transformation that aligns two 2-D or 3-D images
imregcorr	Estimates geometric transformation that aligns two 2-D images using phase correlation
imregdemons	Estimate displacement field that aligns two 2-D or 3-D images
imfuse	Composite of two images
imshowpair	Compare differences between images
registration.metric.MattesMutualInformation	Mattes mutual information metric configuration object
registration.metric.MeanSquares	Mean square error metric configuration object
registration.optimizer.RegularStepGradientDescent	Regular step gradient descent optimizer configuration object
registration.optimizer.OnePlusOneEvolutionary	One-plus-one evolutionary optimizer configuration object

Control Point Registration

cpselect	Control Point Selection Tool
fitgeotrans	Fit geometric transformation to control point pairs
cpcorr	Tune control-point locations using cross correlation
cpstruct2pairs	Convert CPSTRUCT to valid pairs of control points
normxcorr2	Normalized 2-D cross-correlation
cp2tform	Infer spatial transformation from control point pairs

Image Enhancement

Contrast Adjustment

imadjust	Adjust image intensity values or colormap
imcontrast	Adjust Contrast tool
imsharpen	Sharpen image using unsharp masking
locallapfilt	Fast Local Laplacian Filtering of images
localcontrast	Edge-aware local contrast manipulation of images
localtonemap	Render HDR image for viewing while enhancing local contrast
histeq	Enhance contrast using histogram equalization
adapthisteq	Contrast-limited adaptive histogram equalization (CLAHE)
imhistmatch	Adjust histogram of image to match N-bin histogram of reference image
decorrstretch	Apply decorrelation stretch to multichannel image
stretchlim	Find limits to contrast stretch image
intlut	Convert integer values using lookup table
imnoise	Add noise to image

Image Filtering

imfilter	N-D filtering of multidimensional images
imgaussfilt	2-D Gaussian filtering of images
imgaussfilt3	3-D Gaussian filtering of 3-D images
fspecial	Create predefined 2-D filter
imguidedfilter	Guided filtering of images
normxcorr2	Normalized 2-D cross-correlation
wiener2	2-D adaptive noise-removal filtering
medfilt2	2-D median filtering
medfilt3	3-D median filtering
ordfilt2	2-D order-statistic filtering
stdfilt	Local standard deviation of image
rangefilt	Local range of image
entropyfilt	Local entropy of grayscale image
nlfilter	General sliding-neighborhood operations
gabor	Create Gabor filter or Gabor filter bank
imgaborfilt	Apply Gabor filter or set of filters to 2-D image
imboxfilt	2-D box filtering of images
imboxfilt3	3-D box filtering of 3-D images
integralImage	Calculate integral image
integralImage3	Calculate 3-D integral image
integralBoxFilter	2-D box filtering of integral images
integralBoxFilter3	3-D box filtering of 3-D integral images
bwareafilt	Extract objects from binary image by size
bwpropfilt	Extract objects from binary image using properties
padarray	Pad array
freqz2	2-D frequency response
fsamp2	2-D FIR filter using frequency sampling
ftrans2	2-D FIR filter using frequency transformation
fwind1	2-D FIR filter using 1-D window method
fwind2	2-D FIR filter using 2-D window method
convmtx2	2-D convolution matrix

Morphological Operations

bwhitmiss	Binary hit-miss operation
bwmorph	Morphological operations on binary images
bwulterode	Ultimate erosion
bwareaopen	Remove small objects from binary image
imbothat	Bottom-hat filtering
imclearborder	Suppress light structures connected to image border
imclose	Morphologically close image
imdilate	Dilate image
imerode	Erode image
imextendedmax	Extended-maxima transform
imextendedmin	Extended-minima transform
imfill	Fill image regions and holes
imhmax	H-maxima transform
imhmin	H-minima transform
imimposemin	Impose minima
imopen	Morphologically open image
imreconstruct	Morphological reconstruction
imregionalmax	Regional maxima
imregionalmin	Regional minima
imtophat	Top-hat filtering
watershed	Watershed transform
conndef	Create connectivity array
iptcheckconn	Check validity of connectivity argument
applylut	Neighborhood operations on binary images using lookup tables
bwlookup	Nonlinear filtering using lookup tables
makelut	Create lookup table for use with bwlookup
strel	Morphological structuring element
offsetstrel	Morphological offset structuring element

Deblurring

deconvblind	Deblur image using blind deconvolution
deconvlucy	Deblur image using Lucy-Richardson method
deconvreg	Deblur image using regularized filter
deconvwnr	Deblur image using Wiener filter
edgetaper	Taper discontinuities along image edges
otf2psf	Convert optical transfer function to point-spread function
psf2otf	Convert point-spread function to optical transfer function
padarray	Pad array

ROI-Based Processing

roipoly	Specify polygonal region of interest (ROI)
poly2mask	Convert region of interest (ROI) polygon to region mask
regionfill	Fill in specified regions in image using inward interpolation
roicolor	Select region of interest (ROI) based on color
roifilt2	Filter region of interest (ROI) in image
imellipse	Create draggable ellipse
imfreehand	Create draggable freehand region
impoly	Create draggable, resizable polygon
imrect	Create draggable rectangle
imroi	Region-of-interest (ROI) base class

Neighborhood and Block Processing

ImageAdapter	Interface for image I/O
blockproc	Distinct block processing for image
bestblk	Determine optimal block size for block processing
nlfilter	General sliding-neighborhood operations
col2im	Rearrange matrix columns into blocks
colfilt	Columnwise neighborhood operations
im2col	Rearrange image blocks into columns

Image Arithmetic

imabsdiff	Absolute difference of two images
imadd	Add two images or add constant to image
imapplymatrix	Linear combination of color channels
imcomplement	Complement image
imdivide	Divide one image into another or divide image by constant
imlincomb	Linear combination of images
immultiply	Multiply two images or multiply image by constant
imsubtract	Subtract one image from another or subtract constant from image

Image Analysis

Object Analysis

bwboundaries	Trace region boundaries in binary image
bwtraceboundary	Trace object in binary image
visboundaries	Plot region boundaries
edge	Find edges in intensity image
imfindcircles	Find circles using circular Hough transform
viscircles	Create circle
imgradient	Gradient magnitude and direction of an image
imgradientxy	Directional gradients of an image
imgradient3	Find 3-D gradient magnitude and direction of images
imgradientxyz	Find the directional gradients of a 3-D image
hough	Hough transform
houghlines	Extract line segments based on Hough transform
houghpeaks	Identify peaks in Hough transform
qtdecomp	Quadtree decomposition
qtgetblk	Block values in quadtree decomposition
qtsetblk	Set block values in quadtree decomposition

Region and Image Properties

regionprops	Measure properties of image regions
bwarea	Area of objects in binary image
bwareafilt	Extract objects from binary image by size
bwconncomp	Find connected components in binary image
bwconvhull	Generate convex hull image from binary image
bwdist	Distance transform of binary image
bwdistgeodesic	Geodesic distance transform of binary image
bweuler	Euler number of binary image
bwperim	Find perimeter of objects in binary image
bwpropfilt	Extract objects from binary image using properties
bwselect	Select objects in binary image
graydist	Gray-weighted distance transform of grayscale image
imcontour	Create contour plot of image data
imhist	Histogram of image data
impixel	Pixel color values
improfile	Pixel-value cross-sections along line segments
corr2	2-D correlation coefficient
mean2	Average or mean of matrix elements
std2	Standard deviation of matrix elements
bwlabel	Label connected components in 2-D binary image
bwlabeln	Label connected components in binary image
labelmatrix	Create label matrix from bwconncomp structure
bwpack	Pack binary image
bwunpack	Unpack binary image

Texture Analysis

entropy	Entropy of grayscale image
entropyfilt	Local entropy of grayscale image
rangefilt	Local range of image
stdfilt	Local standard deviation of image
graycomatrix	Create gray-level co-occurrence matrix from image
graycoprops	Properties of gray-level co-occurrence matrix

Image Quality

immse	Mean-squared error
psnr	Peak Signal-to-Noise Ratio (PSNR)
ssim	Structural Similarity Index (SSIM) for measuring image quality

Image Segmentation

activecontour	Segment image into foreground and background using active contour
imsegfmm	Binary image segmentation using Fast Marching Method
imseggeodesic	Segment image into two or three regions using geodesic distance-based color segmentation
gradientweight	Calculate weights for image pixels based on image gradient
graydiffweight	Calculate weights for image pixels based on grayscale intensity difference
grayconnected	Select contiguous image region with similar gray values
graythresh	Global image threshold using Otsu's method
multithresh	Multilevel image thresholds using Otsu's method
otsuthresh	Global histogram threshold using Otsu's method
adaptthresh	Adaptive image threshold using local first-order statistics
boundarymask	Find region boundaries of segmentation
superpixels	2-D superpixel oversegmentation of images
superpixels3	3-D superpixel oversegmentation of 3-D image
imoverlay	Burn binary mask into 2-D image
label2idx	Convert label matrix to cell array of linear indices

Image Transforms

bwdist	Distance transform of binary image
bwdistgeodesic	Geodesic distance transform of binary image
graydist	Gray-weighted distance transform of grayscale image
hough	Hough transform
dct2	2-D discrete cosine transform
dctmtx	Discrete cosine transform matrix
fan2para	Convert fan-beam projections to parallel-beam
fanbeam	Fan-beam transform
idct2	2-D inverse discrete cosine transform
ifanbeam	Inverse fan-beam transform
iradon	Inverse Radon transform
para2fan	Convert parallel-beam projections to fan-beam
radon	Radon transform
fft2	2-D fast Fourier transform
fftshift	Shift zero-frequency component to center of spectrum
ifft2	2-D inverse fast Fourier transform
ifftshift	Inverse FFT shift

3D Volumetric Image Processing

imboxfilt3	3-D box filtering of 3-D images
imgaussfilt3	3-D Gaussian filtering of 3-D images
imgradient3	Find 3-D gradient magnitude and direction of images
imregdemons	Estimate displacement field that aligns two 2-D or 3-D images
integralBoxFilter3	3-D box filtering of 3-D integral images
IntegralImage3	Calculate 3-D integral image
medfilt3	3-D median filtering
superpixels3	3-D superpixel oversegmentation of 3-D image
imref3d	Reference 3-D image to world coordinates
affine3d	3-D Affine Geometric Transformation

Code Generation

adaptthresh	Adaptive image threshold using local first-order statistics
boundarymask	Find region boundaries of segmentation
bwareaopen	Remove small objects from binary image
bwboundaries	Trace region boundaries in binary image
bwconncomp	Find connected components in binary image
bwdist	Distance transform of binary image
bweuler	Euler number of binary image
bwlabel	Label connected components in 2-D binary image
bwlookup	Nonlinear filtering using lookup tables
bwmorph	Morphological operations on binary images
bwpack	Pack binary image
bwperim	Find perimeter of objects in binary image
bwselect	Select objects in binary image
bwtraceboundary	Trace object in binary image
bwunpack	Unpack binary image
conndef	Create connectivity array
demosaic	Convert Bayer pattern encoded image to truecolor image
edge	Find edges in intensity image
fitgeotrans	Fit geometric transformation to control point pairs
fspecial	Create predefined 2-D filter
getrangefromclass	Default display range of image based on its class
grayconnected	Select contiguous image region with similar gray values
histeq	Enhance contrast using histogram equalization
hough	Hough transform
houghlines	Extract line segments based on Hough transform
houghpeaks	Identify peaks in Hough transform
hsv2rgb	Convert HSV colormap to RGB colormap
im2double	Convert image to double precision
im2int16	Convert image to 16-bit signed integers
im2single	Convert image to single precision
im2uint16	Convert image to 16-bit unsigned integers
im2uint8	Convert image to 8-bit unsigned integers
imabsdiff	Absolute difference of two images
imadjust	Adjust image intensity values or colormap
imbinarize	Binarize image by thresholding
imbothat	Bottom-hat filtering
imboxfilt	2-D box filtering of images
imclearborder	Suppress light structures connected to image border
imclose	Morphologically close image
imcomplement	Complement image
imcrop	Crop image
imdilate	Dilate image
imerode	Erode image
imextendedmax	Extended-maxima transform
imextendedmin	Extended-minima transform
imfill	Fill image regions and holes
imfilter	N-D filtering of multidimensional images
imfindcircles	Find circles using circular Hough transform
imgaborfilt	Apply Gabor filter or set of filters to 2-D image
imgaussfilt	2-D Gaussian filtering of images
imgradient3	Find 3-D gradient magnitude and direction of images
imgradientxyz	Find the directional gradients of a 3-D image
imhist	Histogram of image data
imhmax	H-maxima transform
imhmin	H-minima transform
imlincomb	Linear combination of images
immse	Mean-squared error
imopen	Morphologically open image
imoverlay	Burn binary mask into 2-D image
impyramid	Image pyramid reduction and expansion
imquantize	Quantize image using specified quantization levels and output values
imread	Read image from graphics file
imreconstruct	Morphological reconstruction
imregionalmax	Regional maxima
imregionalmin	Regional minima
imresize	Resize image
imrotate	Rotate image
imtophat	Top-hat filtering
imtranslate	Translate image
imwarp	Apply geometric transformation to image
integralBoxFilter	2-D box filtering of integral images
integralImage	Calculate integral image
intlut	Convert integer values using lookup table
iptcheckmap	Check validity of colormap
iptcheckconn	Check validity of connectivity argument
lab2rgb	Convert CIE 1976 L*a*b* to RGB
label2rgb	Convert label matrix into RGB image
label2idx	Convert label matrix to cell array of linear indices
mean2	Average or mean of matrix elements
medfilt2	2-D median filtering
multithresh	Multilevel image thresholds using Otsu's method
ordfilt2	2-D order-statistic filtering
otsuthresh	Global histogram threshold using Otsu's method
padarray	Pad array
psnr	Peak Signal-to-Noise Ratio (PSNR)
regionprops	Measure properties of image regions
rgb2gray	Convert RGB image or colormap to grayscale
rgb2hsv	Convert RGB colormap to HSV colormap
rgb2lab	Convert RGB to CIE 1976 L*a*b*
rgb2ycbcr	Convert RGB color values to YCbCr color space
stretchlim	Find limits to contrast stretch image
superpixels	2-D superpixel oversegmentation of images
superpixels3	3-D superpixel oversegmentation of 3-D image
watershed	Watershed transform
ycbcr2rgb	Convert YCbCr color values to RGB color space
imref2d	Reference 2-D image to world coordinates
imref3d	Reference 3-D image to world coordinates
affine2d	2-D Affine Geometric Transformation
projective2d	2-D Projective Geometric Transformation
strel	Morphological structuring element
offsetstrel	Morphological offset structuring element

GPU Computing

bwdist	Distance transform of binary image
bwlabel	Label connected components in 2-D binary image
bwlookup	Nonlinear filtering using lookup tables
bwmorph	Morphological operations on binary images
corr2	2-D correlation coefficient
edge	Find edges in intensity image
histeq	Enhance contrast using histogram equalization
im2double	Convert image to double precision
im2single	Convert image to single precision
im2uint8	Convert image to 8-bit unsigned integers
im2uint16	Convert image to 16-bit unsigned integers
imabsdiff	Absolute difference of two images
imadjust	Adjust image intensity values or colormap
imbothat	Bottom-hat filtering
imclose	Morphologically close image
imcomplement	Complement image
imdilate	Dilate image
imerode	Erode image
imfill	Fill image regions and holes
imfilter	N-D filtering of multidimensional images
imgradient	Gradient magnitude and direction of an image
imgradientxy	Directional gradients of an image
imhist	Histogram of image data
imlincomb	Linear combination of images
imnoise	Add noise to image
ycbcr2rgb	Convert YCbCr color values to RGB color space
imopen	Morphologically open image
imreconstruct	Morphological reconstruction
imregdemons	Estimate displacement field that aligns two 2-D or 3-D images
imresize	Resize image
imrotate	Rotate image
imshow	Display image
imtophat	Top-hat filtering
iradon	Inverse Radon transform
mat2gray	Convert matrix to grayscale image
mean2	Average or mean of matrix elements
medfilt2	2-D median filtering
normxcorr2	Normalized 2-D cross-correlation
padarray	Pad array
radon	Radon transform
regionprops	Measure properties of image regions
rgb2gray	Convert RGB image or colormap to grayscale
rgb2ycbcr	Convert RGB color values to YCbCr color space
std2	Standard deviation of matrix elements
stdfilt	Local standard deviation of image
stretchlim	Find limits to contrast stretch image