Mia-Tools

• mia-2davgmasked(1) Evaluate average intensities of an image series.
• mia-2dbinarycombine(1) Combine two binary images.
• mia-2dcost(1) Evaluate the similarity between two 2D images.
• mia-2ddeform(1) Transform a 2D image by means of a vector field.
• mia-2ddistance(1) Distance between binary masks.
• mia-2deval-transformquantity(1) Evaluate derivative of a transformation
• mia-2dfluid-syn-registration(1) Non-linear registration of 2D images by using a diffeomorphic SyN registration
• mia-2dfluid(1) Fluid dynamic 2D registration
• mia-2dforce(1) Registering force between two 2D images.
• mia-2dfuzzysegment(1) A fuzzy c-means segmentation of a 2D image
• mia-2dgrayimage-combine-to-rgb(1) combine gray scale images to an rgb image.
• mia-2dgroundtruthreg(1) Registration of a series of 2D images
• mia-2dimagecombine-dice(1) Evaluate the dice index between two binary 2D images.
• mia-2dimagecombiner(1) Combine two 2D images.
• mia-2dimagecreator(1) Create a synthetic 2D image.
• mia-2dimagefilter(1) Run filters on a 2D image.
• mia-2dimagefilterstack(1) Run filters on a series of 2D images.
• mia-2dimagefullstats(1) Evaluate some stats over an image.
• mia-2dimageregistration(1) Run a 2d image registration.
• mia-2dimageselect(1) Select one image from a multi-record file.
• mia-2dimageseries-maximum-intensity-projection(1) Evaluate maximum per-pixel intensities of an image series.
• mia-2dimagestack-cmeans(1) Calculate the c-means classification for a series of images.
• mia-2dimagestats(1) Evaluate some statistics of a 2D image.
• mia-2dlerp(1) Linearly combine two 2D images.
• mia-2dmany2one-nonrigid(1) Registration of a series of 2D images
• mia-2dmulti-force(1) Registration force between two images
• mia-2dmultiimageregistration(1) Non-linear registration of 2D images.
• mia-2dmultiimageto3d(1) Convert a 2D multi-record image to a 3D image.
• mia-2dmultiimagevar(1) Evaluate the intensity variation of pixels in a series of images.
• mia-2dmyocard-ica(1) Run an ICA analysis on a series of 2D images
• mia-2dmyocard-icaseries(1) Run an ICA analysis on a series of 2D images
• mia-2dmyocard-segment(1) Work in progress
• mia-2dmyoica-full(1) Run a registration of a series of 2D images.
• mia-2dmyoica-nonrigid-parallel(1) Run a registration of a series of 2D images.
• mia-2dmyoica-nonrigid(1) Run a registration of a series of 2D images.
• mia-2dmyoica-nonrigid2(1) Run a registration of a series of 2D images.
• mia-2dmyoicapgt(1) Run a registration of a series of 2D images.
• mia-2dmyomilles(1) Run a registration of a series of 2D images.
• mia-2dmyoperiodic-nonrigid(1) Run a registration of a series of 2D images.
• mia-2dmyopgt-nonrigid(1) Run a registration of a series of 2D images.
• mia-2dmyoserial-nonrigid(1) Run a serial registration of a series of 2D images.
• mia-2dmyoseries-compdice(1) Evaluate the dice index between segmentations.
• mia-2dmyoseries-dice(1) Evaluate the dice index between segmentations.
• mia-2dmyoset-all2one-nonrigid(1) Non-linear registration of a series of 2D images.
• mia-2dsegcompare(1) Evaluate the Hausdorff distance between segmentations.
• mia-2dseghausdorff(1) Evaluate the Hausdorff distance between segmentations.
• mia-2dsegment-ahmed(1) Run a fuzzy c-means segmentation of a 2D image.
• mia-2dsegment-fuzzyw(1) Run a fuzzy c-means segmentation of a 2D image.
• mia-2dsegment-local-cmeans(1) Run a c-means segmentation of a 2D image.
• mia-2dsegment-local-kmeans(1) Run a k-means segmentation of a 2D image.
• mia-2dsegment-per-pixel-kmeans(1) Run a k-means segmentation of a 2D image.
• mia-2dsegmentcropbox(1) Evaluate a crop-box around a manual segmentation.
• mia-2dsegseriesstats(1) Evaluate time-intensity curves in masked regions of image series.
• mia-2dsegshift(1) Translate a segmentation by the given amount.
• mia-2dsegshiftperslice(1) Translate a segmentation by the given amount.
• mia-2dseries-mincorr(1) Evaluate minimal correlation of time-intensity curves.
• mia-2dseries-sectionmask(1) Evaluate masks from a segmentation.
• mia-2dseries-segdistance(1) Evaluate mean distance between segmentations.
• mia-2dseries2dordermedian(1) Evaluate time-intensity median 2nd order derivative of a series.
• mia-2dseries2sets(1) Combine images of a series to sets.
• mia-2dseriescorr(1) Evaluate the time-intensity correlation in a series of images.
• mia-2dseriesgradMAD(1) Evaluate the time-intensity gradient MAD in a series of images.
• mia-2dseriesgradvariation(1) Evaluate the time-intensity gradient variation in a series of images.
• mia-2dserieshausdorff(1) Evaluate Hausdorff distance between segmentation sets.
• mia-2dseriessmoothgradMAD(1) Evaluate pixel-wise time-intensity gradient of a 2D image series.
• mia-2dseriestovolume(1) Create a 3D volume from a segmentation series.
• mia-2dstack-cmeans-presegment(1) Pre-classify the input image series by using a c-means estimator
• mia-2dstackfilter(1) Filter a series of 2D images in a 3D fashion.
• mia-2dto3dimage(1) Combine a series of 2D images to a volume.
• mia-2dto3dimageb(1) Combine a series of 2D images to a volume.
• mia-2dtrackpixelmovement(1) Track positions in 2D
• mia-2dtransform(1) Transform a 2D image.
• mia-2dtransformation-to-strain(1) Green strain tensor.
• mia-3dbinarycombine(1) Combine two binary images.
• mia-3dbrainextractT1(1) Extract the brain from a 3D T1 MRI head image.
• mia-3dcombine-imageseries(1) Combine images.
• mia-3dcombine-mr-segmentations(1) Combine segmentations.
• mia-3dcost-translatedgrad(1) Evaluate the cost gradient between two images and convert it to a spline representation.
• mia-3dcost(1) Evaluate similarity of two 3D images.
• mia-3dcrispsegment(1) Label segmentation according to probabilities.
• mia-3ddeform(1) Transform a 3D image by means of a vector field.
• mia-3ddistance-stats(1) Evaluate distance statistics for two labeled images.
• mia-3ddistance(1) Evaluate the distance between two binary shapes.
• mia-3deval-transformquantity(1) Evaluate derivative of a transformation
• mia-3dfield2norm(1) Evaluate the norm image of a 3D vector field.
• mia-3dfluid-syn-registration(1) Non-linear registration of 3D images by using a diffeomorphic SyN registration
• mia-3dfluid(1) Fluid dynamic 3D registration
• mia-3dforce(1) Evaluate the registration force between two 3D images.
• mia-3dfuzzysegment(1) Fuzzy c-means segmentation of a 3D image.
• mia-3dgetsize(1) Print the dimensions of a 3D image.
• mia-3dgetslice(1) Extract slices from a 3D image.
• mia-3dimageaddattributes(1) Add attributes to the meta data of a 3D image.
• mia-3dimagecombine(1) Combine two 3D images.
• mia-3dimagecreator(1) Create a synthetic 3D image.
• mia-3dimagefilter(1) Filter a 3D images.
• mia-3dimagefilterstack(1) Filter a series of 3D images.
• mia-3dimageselect(1) Select one image from multi-image file.
• mia-3dimagestatistics-in-mask(1) Evaluate statistics within a masked region of the input data.
• mia-3dimagestats(1) Evaluate some image statistics.
• mia-3disosurface-from-stack(1) Extract an ist-surface froma a 3D image.
• mia-3disosurface-from-volume(1) Extract an ist-surface froma a 3D image.
• mia-3dlandmarks-distances(1) Evaluate per landmark distances between 3D landmark sets.
• mia-3dlandmarks-transform(1) Transform 3D landmark positions.
• mia-3dlerp(1) Linearly combine two 3D images.
• mia-3dmany2one-nonrigid(1) Registration of series of 3D images
• mia-3dmaskseeded(1) Mask an area by seeded region growing
• mia-3dmotioncompica-nonrigid(1) Non-linear registration of a series of 3D images.
• mia-3dnonrigidreg-alt(1) Non-linear registration of 3D images.
• mia-3dnonrigidreg(1) Non-linear registration of 3D images
• mia-3dprealign-nonrigid(1) Registration of a series of 3D images.
• mia-3dpropose-boundingbox(1) Evaluate a bounding box for the image.
• mia-3drigidreg(1) Linear registration of 3D images.
• mia-3dsegment-ahmed(1) Run a fuzzy c-means segmentation of a 3D image.
• mia-3dsegment-local-cmeans(1) Run a c-means segmentation of a 3D image.
• mia-3dserial-nonrigid(1) Serial registration of 3D images.
• mia-3dseries-track-intensity(1) Track intensities of pixels in series of 3D images.
• mia-3dtrackpixelmovement(1) Track positions in 3D
• mia-3dtransform(1) Transform a 3D image.
• mia-3dtransform2vf(1) Create Vectorfield from a transformation.
• mia-3dvectorfieldcreate(1) 3D vector field creation.
• mia-3dvf2transform(1) Convert a 3D vectorfield from a 3D transformation.
• mia-3dvfcompare(1) Compare two Vectorfields.
• mia-cmeans(1) C-means classification of a histogram.
• mia-filenumberpattern(1) File name number pattern analysis
• mia-labelsort(1) Create sorted histogram mapping
• mia-mesh-deformable-model(1) Fit a mesh by using a deformable model.
• mia-mesh-to-maskimage(1) Create a binary mask from the mesh surfac.
• mia-meshdistance-to-stackmask(1) Evaluate the distance between a binary shape given as reference and a mesh.
• mia-meshfilter(1) Run filters on a 3D mesh.
• mia-multihist(1) histogram of a series of 2D images
• mia-myowavelettest(1) Wavelet based curve analysis
• mia-plugin-help(1) Print help about plug-in groups
• mia-raw2image(1) Convert raw data into a 2D image
• mia-raw2volume(1) Convert raw data into a 3D image
• mia-wavelettrans(1) Column wise wavelet transform