Tools for processing image data

Retrieving information on PET image

List the image dimensions or pixel sizes: imgdim
Get the maximum pixel value of one or more PET images: imgmax, or the position of maximum pixel value: imgmaxp
Checking, setting and conversion of radioactivity concentration units in PET images: imgunit
Saving profile line from image or sinogram, either from specified location or from peak value: imgprofi
Make a grey-scale or rainbow color-scale TIFF image file for insertion to PowerPoint etc.: img2tif.

List the contents of ECAT 6.3 or 7.x main header: lmhdr; edit ECAT 7.x main header: e7emhdr; edit ECAT 7.x image volume headers: e7evhdr; edit ECAT 6.3 main header: e63emhdr.
List the content(s) of ECAT 6.3 or 7.x subheader(s): lshdr; edit the contents of ECAT 7.x image volume headers: e7evhdr.
List the ECAT 6.3 or 7.x matrices: lmlist.
List (or change) the ECAT frame times: eframe.
Report the status of decay correction in an ECAT image: imgdecay.
Report the zero (injection) date and time and scan start time in ECAT file: ecattime and egetstrt.
Computation of SIF from dynamic images or sinograms in ECAT format: eframe, cti2sif, and specifically from HR+ scan files: hrp2sif.
Copying subheader information between CTI ECAT 6.3 files: cpshdrs and e6cphdrs.
Set ECAT sinogram and image frame times: eframe.
Correction of the frame times relative to the injection time, when scanning was started later: ecattime.
Correction of missing matrices in ECAT 6.3 image: e63mreg tries to remove odd image planes and frames, and add matrices with zero pixel values in place of missing matrices.
Changing ECAT plane and frame numbers to continuous sequence beginning from 1: efixplnr.

Delete certain time frames or planes from dynamic or static image: imgdelfr and imgdelpl.
Extracting smaller volume in PET image to a new file: imgbox or Carimas.
Extracting certain planes and frames from ECAT format to a new file: esplit.
Cut off empty sides to reduce image file size: imgslim versions below 1.0.0 for ECAT images and from version 1.0.0 and above (.NET versions) for microPET image files.
Cutting the size of PET images by reducing the dimensions: imgshrink.
Extract TAC of single pixel(s) specified by column, row and plane: pxl2tac.
Extract all pixel values, or pixels inside specified ROI(s), in ECAT images: imgpext (replaces extrimg); also a separate tool which supports Carimas VOIs is available.

Calculating a "sum image", i.e. an average over certain time frames from dynamic ECAT or Analyze image: ecatsum
Calculating ECAT, Analyze, or NIfTI image integral (AUC) over certain time range: imginteg.
Calculating an average over time or sum over time from Analyze 7.5 images in Matlab: sum_frame.
DICOM images can be summed using .NET command-line program ImageSum.exe, or in Carimas, where the displayed sum image can be saved as DICOM from Image>Commands>Filters>Export Visual Image.

Carimas can read several image formats, and save single file NIfTI-1 images, when optional plug-in Nifti Writer is installed.
ECAT format to Analyze 7.5: ecat2ana
ECAT format to NIfTI: ecat2nii
Conversion between ECAT 6.3 and 7.x formats: e63to7 and e7to63.
Conversion to and from flat format.

Subtract background radioactivity: imgbkg.
Subtract reference region TAC from dynamic image: imgbound.
Simple arithmetic calculation for image files: imgcalc.
Combining two or more ECAT sinogram or image files: ecatcat.
Turning images or sinograms in X, Y, and/or Z direction (flip the order of slices): imgflip.
Produce a "head curve", i.e. an average of all pixels as a function of time: imghead.
Replace the pixel values in sinogram or image using a look-up table: imglkup.
Sort ECAT 6.3 image matrices in ascending order: ctisort.
Combine the adjacent ECAT 7.x volume image planes to reduce data size and noise: e7vplavg.
Combining two or more static Analyze 7.5 images into one dynamic image in Matlab: combine.
Correction of physical decay and removing of the decay correction: imgdecay.
Removing patient name from PET images.
Image filtering.