Supported file formats
Main article: Supported Formats
MIPAV supports read/write access in a number of different file-formats, and can read still others. A handful are MIPAV-specific, but most are standard file formats or are generated by different imaging software. Not only does MIPAV support a number of medical image data formats, it also supports some general purpose formats -- very helpful when making presentations!
File format |
Extension |
Supports |
Open |
Save |
Does not support |
---|---|---|---|---|---|
header HEAD, data BRIK |
See AFNI |
Y |
Y[1] |
||
header HDR, data IMG |
See also: Analyze files |
Y |
Y |
TBD | |
PICT |
TBD. |
Y |
Y |
||
TXT |
MIPAV defined ascii text surface format. The text surface file records the triangle mesh vertices, normal and connectivity. |
Y |
Y |
||
Audio Video Interleave |
AVI |
Uncompressed RLE8 |
Y |
Y[2] |
TBD |
BFLOAT |
BFLOAT |
TBD. |
Y |
Y |
|
d3pro, reco, acqp, 2dseq |
Y |
Y |
TBD | ||
Cheschire |
IMC, IMG |
TBD |
Y |
Y |
TBD |
Cheschire Overlay |
OLY |
TBD |
Y |
N |
|
DCM, IMA |
See DICOM files |
Y |
Y |
TBD | |
DM3 |
DM3 |
TBD |
|||
FTS |
See also: FITS |
Y |
Y |
TBD | |
FreeSurfer surface |
See also: FreeSurfer image and surface files. |
Y |
Y |
TBD | |
FreeSurfer image |
COR |
INFO for the header file and NNN for each slice where NN is the number of the slice. See also: FreeSurfer image and surface files. |
Y |
Y |
TBD |
SIG |
See also: GE - Genesis 5X and LX. |
Y |
Y |
TBD | |
GEDNO |
See also: GE - Genesis 5X and LX. |
Y |
N |
TBD | |
ICS, IDS |
Y |
Y |
TBD | ||
HDR |
TBD |
Y |
Y |
TBD | |
Laser Scanning Microscope (Zeiss) |
LSM |
Y |
N |
TBD | |
LIFF |
LIFF |
See also: LIFF. |
TBD | ||
Magnetron Vision |
IMA |
TBD |
Y |
Y |
|
MAP |
MAP |
TBD |
Y |
N |
|
Medical Image Network Common Data Form (including ROIs) |
MNC |
See also: Medical Image NetCDF (MINC) files. |
Y |
Y |
TBD |
MEDIVISION |
BIN |
TBD |
Y |
Y |
TBD |
MetaMorph Stack |
STK |
TBD |
Y |
Y |
TBD |
Medical Research Council |
MRC |
Y |
Y |
TBD | |
MGH/MGZ volume format |
MGH, MGZ |
MGH for uncompressed storage; MGZ or.MGH.GZ for compressed storage. |
Y |
Y |
TBD |
MICRO-CAT (LOG) |
LOG, CT |
See also: MICRO-CAT. |
TBD | ||
MINC 1.0, 2.0 |
MNC |
See also: Medical Image NetCDF (MINC) files. |
Y |
Y |
|
MIPAV-specific file formats | |||||
MIPAV LUT |
LUT |
See also: MIPAV (LUT) files. |
|||
MIPAV MTX |
MTX |
See MIPAV (MTX) files. |
|||
MIPAV PLT |
PLT |
See MIPAV (PLT) files. |
|||
MIPAV SUR |
SUR |
See MIPAV (SUR) files. |
|||
MIPAV TXT |
TXT |
See also: MIPAV TXT files |
|||
MIPAV VOI |
VOI, XML |
See also: MIPAV VOI files |
|||
XML |
Full support, see also: MIPAV VOI in XML and MIPAV XML |
N/A | |||
End of MIPAV-specific file formats | |||||
MRC |
MRC |
TBD |
Y |
Y |
|
Nearly Raw Raster Data (NRRD) |
1 file with extension of.NRRD or 2 files with extension of.NHDR for header file and.RAW,.TXT,.HEX,.RAW.GZ, or.RAW.BZ2 for data file |
Y |
Y |
||
NIFTI |
2 files with header HDR and data IMG; or a single file.NII |
See "NIFTI" |
Y |
Y |
|
OSM |
WU |
TBD |
|||
Optical Coherence Tomography |
TMG |
TBD |
Y |
Y |
|
Phillips |
PAR and PARV2 for header files and REC and FREC for data files |
PAR and PARV2 for header files and REC and FREC for data files See "Phillips PAR/REC" |
Y |
Y |
TBD |
PICT |
PICT |
Encoding of black and white images as bitmap mode PICTs. Encodes grayscale images from 2 to 8-bits as palette mode (PICT format does not have grayscale mode). Encodes palette images as palette mode PICTS, encodes other images as a 24-bit 3 component directed bits PICT. Decoding of black and white and up to (and including) 32-bit color PICT images. Also supports the decoding of compressed PICT images. |
Y |
Y |
N/A |
Polygon File Format or Stanford Triangle Format |
PLY |
See "Polygon File Format" |
Y |
Y |
|
QT |
See "QuickTime-Apple" |
Y |
Y |
TBD | |
RAW |
See "Raw data files" |
Y |
Y |
TBD | |
Siemens CT |
Old Siemens Somatom CT format (DR3) |
Y |
Y |
TBD | |
IMA |
See "Siemens - Magnetom Vision" |
Y |
Y |
TBD | |
Siemens MicroCAT |
LOG, CT |
See also "MICRO-CAT" |
Y |
Y |
|
SPM |
SPM |
TBD |
Y |
Y |
|
STL |
STLA, STLB |
See also "STL (ASCII and Binary)" |
Y |
Y |
|
Truevision Graphics Adapter |
Encodes index color images in an uncompressed TGA palette format; encodes other images in an uncompressed 24-bit TGA format. Decodes black and white, palette, true color uncompressed images. Decodes 16-bit, 24-bit, and 32-bit true color variants (can include loading of alpha channel). |
Y |
Y |
N/A | |
Washington University OSM dataset Structure |
WU |
TBD |
Y |
Y |
TBD |
Common raster file formats | |||||
Adobe Photoshop |
PSD |
Encoding of bitmap, grayscale, RGB, and index mode images. Also supports the encoding of RLE compression for all image variants. Decoding of Adobe Photoshop v 2.5 images (and above) with the following modes: bitmap, grayscale, palette, and RGB. |
Y |
Y |
Alpha saving |
PIC |
See "BIORAD" |
Y |
Y |
TBD | |
GIF |
Decoding of interlaced images and images with a transparency information set. See also "Graphics Interchange Format (GIF) files" |
Y |
N |
Encoding of a GIF file Decoding of multiframe GIFs using the multiframe load mechanism | |
Joint Photographics Experts Group |
See "Joint Photographic Experts Group (JPEG/JFIF) files" |
Y |
Y |
TBD | |
Microsoft Windows Bitmap |
BMP, DIB |
Encoding of Index Color Model images as uncompressed BMP palette formats. Other Color Model images are encoded as uncompressed 24-bit BMP formatted files. Decoding of BMP version 2.x through 4.x files. Also supports the encoding of OS/2 variant files. Supports the encoding of true color and palette images, as well as Run-Length Encoding 8 (RLE8) and RLE4 images. See "Microsoft Windows Bitmap (BMP) files" |
Y |
Y |
Decoding of old versions of BMP files (prior to version 2.x) |
Microsoft Windows Cursor |
CUR |
Y |
Y |
||
Microsoft Windows icon |
ICO |
Y |
Y |
||
PC Paintbrush File Format |
Encoding of PCX files including uncompressed and RLE-compressed support. Full support for decoding of PCX files. See PC Paintbrush (PCX) files. |
Y |
Y |
N/A | |
PNG |
Encodes index images as palette PNG images. Also encodes grayscale formatted images (which include grayscale and direct color) with bit masks saved in grayscale file format. Direct color and RGB are encoded as RGB images with an alpha mask (if mask is available from the image). 16-bit depth images are truncated to 8-bit depth when the image is loaded. Decoding of palette, grayscale, and true color images. Also supports the transparency chunk for palette based images. |
Y |
Y |
Some extension chunks (such as ALPHA) | |
Sun Raster |
RS, RAS |
Encodes 8-bit index color images with or without RLE compression or RGB format for other color models. Decoding of 4, 8, 16, 24, and 32-bit images. Supports the decoding of the old, standard, byte encoded, RGB, TIFF, and IFF format type. See "Sun Raster (RS) files" |
Decoding of RAW color map or experimental type images | ||
TARGA |
TGA |
See also "TARGA" |
Y |
Y |
|
Tag Image File Format |
TIF, TIFF |
See also "Tag Image File Format (TIFF) files" |
Y |
Y |
Tiled |
X BitMap |
XBM |
Encoding of 2-color XBM images. Fully supports the decoding of XBM formatted files. |
N/A | ||
X PixMap |
XPM |
Encoding of XPM palette images. Fully supports the decoding of XPM formatted files. |
Y |
Y |
Decoding of image files with 3 or more characters per pixel/voxel |
End of common raster file formats | |||||
Surface description file formats | |||||
ASCII text |
TXT |
Y |
Y |
||
ASCII Poly |
POLY |
See also: POLY |
Y |
Y |
|
ASCII PLY |
PLY |
See also "Polygon File Format" |
|||
ASCII STL |
STL |
See also "STL (ASCII and Binary)" |
Y |
Y |
|
Binary STL |
STLB |
See also "STL (ASCII and Binary)" |
Y |
Y |
|
Legacy VTK |
VTK |
See also: Legacy VT |
Y |
Y |
|
MIPAV TXT |
TXT |
See also "MIPAV text file format" |
Y |
Y |
|
MIPAV surface files |
SUR |
See also "MIPAV (SUR) files" |
Y |
Y |
|
VRML |
WRL |
See also "VRML" |
Y |
Y |
|
VTK XML |
VTP |
See also "VTK XML surface" |
Y |
Y |
|
XML surface |
XML |
See also "XML surface" |
Y |
Y |
[1]MIPAV does not save extra information with the AFNI file. It only does the "bare minimum." [2]AVIs are saved with encoding options: run-length, MPEG, MPEG-4, QuickTime. However, MIPAV requires the Java Media Framework, which is installed with MIPAV.
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