This table shows the extension of the file that you should choose if you want to open/import a dataset in a particular format.
| Format name | File to choose | Structure of files |
|---|---|---|
| 3i SlideBook | .sld | Single file |
| Adobe Photoshop PSD | .psd | Single file |
| AIM | .aim | Single file |
| Alicona 3D | .al3d | Single file |
| Amersham Biosciences Gel | .gel | Single file |
| Amira Mesh | .am, .grey, .hx, .labels, ... | Single file |
| Analyze 7.5 | .img or .hdr | One .img file and one similarly-named .hdr file |
| Andor Bio-Imaging Division (ABD) TIFF | .tif or .tiff | One or more .tif/.tiff files, and an optional .txt file |
| Animated PNG | .png | Single file |
| Aperio SVS TIFF | .svs | Single file |
| Applied Precision CellWorX | .htd | One .htd file plus one or more .pnl or .tif files and optionally one or more .log files |
| AVI | .avi | Single file |
| Axon Raw Format | .arf | Single file |
| BD Pathway | .exp | Multiple files (.exp, .dye, .ltp, ...) plus one or more directories containing .tif and .bmp files |
| Becker & Hickl SPCImage | .sdt | Single file |
| Bio-Rad Gel | .1sc (or no extension) | Single file |
| Bio-Rad PIC | .pic | One or more .pic files and an optional lse.xml file |
| Bitplane Imaris | .ims | Single file |
| Bruker MRI | fid or acqp (no extension) | One "fid" and one "acqp" plus several other metadata files and a "pdata" directory |
| Burleigh | .img | Single file |
| Canon DNG | .cr2, .crw, .jpg, .thm, or .wav | Single file |
| Cellomics | .c01 | One or more .c01 files |
| cellSens VSI | .vsi | One .vsi file and an optional directory with a similar name that contains at least one subdirectory with .ets files |
| DeltaVision | .dv or .r3d or .d3d | One .dv, .r3d, or .d3d file and up to two optional .log files |
| DICOM | .dcm or .dicom (or no extension) | One or more .dcm or .dicom files |
| ECAT7 | .v | Single file |
| EPS | .eps | Single file |
| Evotec/PerkinElmer Opera Flex | .flex or .mea .or .res | One directory containing one or more .flex files, and an optional directory containing an .mea and .res file. The .mea and .res files may also be in the same directory as the .flex file(s). |
| FEI | .img | Single file |
| FEI TIFF | .tif | Single file |
| FITS | .fits | Single file |
| Gatan Digital Micrograph | .dm3 | Single file |
| Gatan Digital Micrograph 2 | .dm2 | Single file |
| GIF | .gif | Single file |
| Hamamatsu .ndpi | .ndpi | Single file |
| Hamamatsu Aquacosmos NAF | .naf | Single file |
| Hamamatsu HIS | .his | Single file |
| Hamamatsu VMS | .vms | One .vms file plus several .jpg files |
| Hitachi S-4800 | .txt | One .txt file plus one similarly-named .tif, .bmp, or .jpg file |
| ICS | .ics or .ids | One .ics and possibly one .ids with a similar name |
| Imacon | .fff | Single file |
| ImagePro Sequence | .seq | Single file |
| ImagePro Workspace | .ipw | Single file |
| IMAGIC | .hed or .img | One .hed file plus one similarly-named .img file |
| Improvision Openlab LIFF | .liff (or no extension) | Single file |
| Improvision Openlab Raw | .raw | Single file |
| Improvision TIFF | .tif or .tiff | Single file |
| InCell 1000 | .xdce | One .xdce file with at least one .tif/.tiff or .im file |
| InCell 3000 | .frm | Single file |
| INR | .inr | Single file |
| IPLab | .ipl | Single file |
| IPLab-Mac | .ipm (or no extension) | Single file |
| JEOL | .dat or .img or .par | A single .dat file or one .img file with a similarly-named .par file |
| JPEG | .jpg | Single file |
| JPEG 2000 | .jp2 | Single file |
| JPK | .jpk | Single file |
| JPX | .jpx | Single file |
| Khoros VIFF | .xv | Single file |
| Kodak BIP | .bip | Single file |
| Lambert Instruments FLIM | .fli | Single file |
| Leica LAS AF LIF | .lif | Single file |
| Leica LCS LEI | .lei | One .lei file with at least one .tif/.tiff file and an optional .txt file |
| LEO | .tif or .sxm | Single file |
| Li-Cor L2D | .l2d | One .l2d file with one or more directories containing .tif/.tiff files |
| LIM | .lim | Single file |
| MetaMorph 7.5 TIFF | .nd or .tif or .tiff | One or more .tif/.tiff files plus an optional .nd file |
| MetaMorph Stack (STK) | .nd or .stk | One or more .stk files plus an optional .nd file |
| MIAS (Maia Scientific) | .tif or .tiff | One directory per plate containing one directory per well, each with one or more .tif or .tiff files |
| MINC MRI | .mnc | Single file |
| Minolta MRW | .mrw | Single file |
| MNG | .mng | Single file |
| Molecular Imaging | .stp | Single file |
| MRC (Medical Research Council) | .mrc | Single file |
| NEF (Nikon Electronic Format) | .nef | Single file |
| NIfTI | .nii or .img or .hdr | A single .nii file or one .img file and a similarly-named .hdr file |
| Nikon Elements TIFF | .tif or .tiff | Single file |
| Nikon EZ-C1 TIFF | .tif or .tiff | Single file |
| Nikon NIS-Elements ND2 | .nd2 | Single file |
| NRRD | .nrrd or .nhdr | A single .nrrd file or one .nhdr file and one other file containing the pixels |
| Olympus CellR/APL | .apl | One .apl file, one .mtb file, one .tnb file, and a directory containing one or more .tif files |
| Olympus FluoView FV1000 | .oib or .oif | Single .oib file or one .oif file and a similarly-named directory containing .tif/.tiff files |
| Olympus FluoView TIFF | .tif or .tiff | Single file |
| Olympus ScanR | experiment_descriptor.xml | One .xml file, one "data" directory containing .tif/.tiff files, and optionally two .dat files |
| Olympus SIS TIFF | .tif or .tiff | Single file |
| OME-TIFF | .ome.tiff | One or more .ome.tiff files |
| OME-XML | .ome | Single file |
| Oxford Instruments | .top | Single file |
| PCX | .pcx | Single file |
| Perkin Elmer Densitometer | .hdr or .img | One .hdr file and a similarly-named .img file |
| PerkinElmer UltraView | .htm | One .htm file, several other metadata files (.tim, .ano, .csv, ...) and either .tif files or .2, .3, .4, etc. files |
| PGM (Portable Gray Map) | .pgm | Single file |
| Photoshop TIFF | .tif or .tiff | Single file |
| PICT | .pct or .pict (or no extension) | Single file |
| PNG | .png | Single file |
| Prairie Technologies TIFF | .xml or .cfg or .tif | One .xml file, one .cfg file, and one or more .tif/.tiff files |
| Quesant | .afm | Single file |
| QuickTime Movie | .mov | Single file |
| RHK | .sm2 | Single file |
| SBIG | (no extension) | Single file |
| Seiko | .xqd or .xqf | Single file |
| SimplePCI & HCImage | .cxd | Single file |
| SimplePCI & HCImage TIFF | .tif or .tiff | Single file |
| SM Camera | (no extension) | Single file |
| SPIDER | .spi | Single file |
| Targa | .tga | Single file |
| Text | .txt | Single file |
| TIFF | .tif or .tiff | Single file |
| TillPhotonics TillVision | .vws | One .vws file and possibly one similarly-named directory |
| Topometrix | .zfr, .ffr, or .tfr | Single file |
| Trestle | .tif | One .tif file plus several other similarly-named files (e.g. *.FocalPlane?-*, .sld, .slx, .ROI) |
| UBM | .PR3 | Single file |
| Unisoku | .HDR or .DAT | One .HDR file plus one similarly-named .DAT file |
| Varian FDF | .fdf | Single file |
| VG SAM | .DTI | Single file |
| VisiTech XYS | .html | One .html file plus one or more .xys files |
| Volocity | .mvd2 | One .mvd2 file plus a "Data" directory |
| Volocity Library Clipping | .acff | Single file |
| WA-TOP | .wat | Single file |
| Windows Bitmap | .bmp | Single file |
| Zeiss AxioVision ZVI | .zvi | Single file |
| Zeiss LSM | .lsm or .mdb | One or more .lsm files; if multiple .lsm files are present, an .mdb file should also be present |
| µManager | .txt or .tif | A "metadata.txt" file plus one or more .tif files |
