Man Pages in
mia-tools
Carta.tech
Packages
mia-tools
120
Section 1:
Executable programs or shell commands
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.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-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-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.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-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-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-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-mr-segmentations.1
Combine segmentations.
mia-3dcost.1
Evaluate similarity of two 3d images.
mia-3dcost-translatedgrad.1
Evaluate the cost gradient between two images and convert it to a spline representation.
mia-3dcrispsegment.1
Label segmentation according to probabilities.
mia-3ddeform.1
Transform a 3d image by means of a vector field.
mia-3ddistance.1
Evaluate the distance between two binary shapes.
mia-3ddistance-stats.1
Evaluate distance statistics for two labeled images.
mia-3deval-transformquantity.1
Evaluate derivative of a transformation
mia-3dfield2norm.1
Evaluate the norm image of a 3d vector field.
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-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.1
Non-linear registration of 3d images
mia-3dnonrigidreg-alt.1
Non-linear registration of 3d images.
mia-3dprealign-nonrigid.1
Registration of a series of 3d images.
mia-3drigidreg.1
Linear registration of 3d images.
mia-3dsegment-ahmed.1
Run a fuzzy 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-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