File formats in Turku PET Centre
| 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 commandjava -jar foo.jarJAR 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 |
