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File formats in Turku PET Centre

Table 1. Data file formats by extension
Extension File type More information
.a ECAT 7.x (HR+) attenuation file Required in image reconstruction
.alg Allogg blood on-line sampler raw data Allogg data format
.atn ECAT 6.3 attenuation file Required in image reconstruction
PET raw data in Turku
.bat PC/Windows batch files (scripts) Batch files are small programs that can be created with any text editor. For example they are used to process blood data
.bld GEMS blood on-line sampler raw data Scanditronics/GEMS data format
.bz2 bzip2 compressed file(s) Windows command-prompt tools for compression (bzip2) and decompression (bunzip2) are available in TPC. Software can also be downloaded from http://www.bzip2.org
.cpt CPT file CPT format specification.
ASCII data file containing the regional time-activity curves (TACs) drawn and calculated using CTI Imagetool or Vinci. CPT files can be converted to DFT format using cpt2dft.
.cr Count-rate file ASCII data file containing the true counts collected by the PET scanner during each second of the scanning. Used for time-delay correction
.csv Comma-separated values ASCII file format for storing tabular data. For example, simple TAC data in Excel can be saved in CSV format, and thereafter converted to DFT using csv2dft.
.dcm DICOM image (or one part of it) PET images in Turku
.dft Regional TAC file DFT format specification
Converting DFT to HTML table
.exe PC/Windows executable program file Programs with command-line interface can be used in Command prompt window
.fit File containing parameters of mathematical functions fitted to time-activity curves (TACs) FIT format specification;
TACs can be calculated from FIT files or FIT files can be converted to RES files.
Input file for [15O]water studies (*_blo.fit) Time-delay corrected [15O]water blood TAC file
.hc Head-curve data from HRRT scanner Convert the head-curve file into usual count-rate format before using it in time-delay fitting
.hdr Analyze 7.5, NIfTI-1, or Inveon/MicroPET image header, if together with *.img file PET images in Turku
.head Head-curve An average TAC of whole dynamic image or sinogram used instead of count-rate curve in correction of time-delay
.htm
.html
(X)HTML files to be viewed with WWW browsers Converting DFT to HTML table
Converting results to HTML tables
.idwc ROI TAC file in Imanet Hammersmith Format of *.idwc files
Regional tissue data can be converted between file formats in Turku and in Hammersmith format using dft2idwc and idwc2dft
.if Input file in Imanet Hammersmith Format of *.if files
Plasma (corrected for metabolites) and blood data can be converted between file formats in Turku and in Hammersmith using dft2if and dft2if
Interfile image format Image format for HRRT. Conversion to ECAT with if2ecat
.img ECAT 6.3 image (2D), or
Analyze 7.5, NIfTI-1, or Inveon/MicropET image, if together with *.hdr file
PET images in Turku
.jar Java archive Java program that can be executed with command
java -jar foo.jar
JAR in Wikipedia
.kbq TAC file in units [kBq/ml] Old format of regional TAC files: *.roi.kbq
Arterial blood: *ab.kbq
Venous blood: *vb.kbq
Arterial plasma: *ap.kbq
Venous plasma: *vp.kbq
.lis Scanditronics blood on-line sampler raw data (usually *_blo.lis) Scanditronics/GEMS data format
.n ECAT 7.x (HR+) normalization file Required in image reconstruction
.nci TAC file in units [nCi/ml] Old format of regional TAC files: *.roi.nci
Arterial blood: *ab.nci
Venous blood: *vb.nci
Arterial plasma: *ap.nci
Venous plasma: *vp.nci
.nii NIfTI image (single file format) NIfTI-1; Not yet supported by TPC software
.nrm ECAT 6.3 sinogram normalization file Required in image reconstruction
PET raw data in Turku
.opj Origin graphics and data file format Ask IT group to install Origin to your PC/Windows
.par Parameter file for program mrprec
Parameter file for program fbprec
Image reconstruction
.petgui PetGui UI definition file User Interface definition for PetGui
.petguiapp PetGui session file Saved PetGui session
.petguibatch PetGui pipeline file Saved PetGui pipeline
.ps PostScript file Installing GSview
Plotting PET TACs in PS graphs
.r Head-curve data from HR+ scanner Convert the head-curve file into usual count-rate format before using it in time-delay fitting
.rat File containing fractions of parent tracer in plasma (*.rat, *ap.rat) Fraction file format
Blood-to-plasma ratios (*bp.rat) Often measured during on-line sampling of blood. Later, blood TAC can be converted to plasma using this ratio.
.res Data analysis results RES format specification
Converting results to HTML tables
.roi Image region-of-interest (ROI) definitions Drawing and handling ROIs
.scn ECAT 6.3 sinogram (scan file) Required in image reconstruction
PET raw data in Turku
.s ECAT 7.x sinogram PET raw data in Turku
.sif Scan information file Format of SIF file
Mandatory with Analyze image to keep time information
.svg Scalable Vector Graphics, an XML graphics file format SVG files can be viewed in web browsers; for example, Renesis Player is a free SVG viewer and Windows Explorer plugin.
Making SVG files from PET TACs
.tif Graphics file format For viewing PET images on computers without dedicated analysis software; making TIF images from PET images
.tsv TSV file ASCII data file containing the regional time-activity curves (TACs) drawn and calculated using Amide. The *.tsv files can be converted to DFT format using tsv2dft.
.txt ASCII text file Simple text file, made with for example Notepad (Windows) or gedit (Unix/Linux).
Parameter file for program mrprec
Parameter file for program fbprec
Image reconstruction
.v ECAT 7.x image (volume) PET images in Turku
.wk1
.wk3
Lotus spreadsheet file PET results were previously collected and processed using Lotus 1-2-3. MS Excel can import Lotus files
.xls Microsoft Excel spreadsheet file To import data in Excel: convert TAC data or result data into HTML table format with dft2html, res2html, or rescoll, and then drag-and-drop the HTML file in Excel.
To export TAC data, save your data in .csv format in Excel, and then convert .csv to DFT.
.zip ZIP compressed file(s) WinZip available in all hospital PCs
ZipCentral
Info-ZIP



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