Center for Bio-Image Informatics

Engineering, Biology and Computer Science, working together.

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BioImage Convert

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This application is a command line image conversion utility. It can read and write many image formats, extract ROI and meta-data stored in images. Accepted image formats are: BioRad PIC, TIFF, OME-TIFF, Metamorph STK (uncompressed and LZW compressed), Fluoview, Olympus Image Binary (OIB), Carl Zeiss LSM 5, PSIA TIFF, Nanoscope II/III, JPEG, PNG, BMP, IBW, OME, RAW and video: QuickTime, AVI, MPEG1/2/4, Flash, etc.

Features

  • Cross-platform with binaries for Windows, Mac, Linux
  • Reads many bio image and video formats
  • Exports several image and video formats
  • Reads and writes (OME-TIFF) meta-data
  • Applies many image operations: ROI, enhancement, depth convert, resize, rotate, channel remap, combine frames, etc...

Downloads

Documentation

Source code

Formats (as for v. 1.44)

CodecNameFeaturesExtensions
JPEGJPEG File Interchange Format R W RMjpg|jpeg|jpe|jif|jfif
TIFFTagged Image File Format R W RM WM WMPtif|tiff|fax|geotiff
STKMetamorph Stack File Format R RMstk
PSIAAFM PSIA TIFF File Format R RMtif|tiff
FLUOVIEWFluoview TIFF File Format R RMtif|tiff
LSMCarl Zeiss LSM5 File Format R RMlsm
OME-TIFFOpen Microscopy TIFF R W RM WM WMPome.tif|ome.tiff
BigTIFFTagged Image File Format (64bit) R W RM WM WMPbtf|tif|tiff|geotiff
OME-BigTIFFOpen Microscopy BigTIFF R W RM WM WMPome.btf|ome.tif|ome.tiff
BIORAD-PICBioRad PIC file R RMpic
BMPWindows Bitmap R Wbmp
PNGPortable Network Graphics R W RM WMpng
NANOSCOPENanoScope II/III file R RMnan
IBWIgor binary file format v5 R RMibw
OMEOpen Microscopy Environment XML W WM WMPome
RAWRAW image pixels R W WMPraw
OIBOlympus Image Binary R RMoib
MPEGMPEG I R W WMPmpg|mpeg|m1v
MPEG2MPEG 2 R W WMPmpg|mpeg|m2v|m2t
MPEG4MPEG 4 R W WMPm4v
MJPEGMotion JPEG R W WMPmjpeg|mjp|mjpg
MJPEG2000Motion JPEG-2000 Rmj2|mjp2
AVIMicrosoft Windows AVI R W WMPavi
WMVMicrosoft Windows Media Video R W WMPwmv|asf
QuickTimeApple QuickTime R W WMPmov
FlashAdobe Flash W WMPswf
OGGOGG Theora Video Format Rogg|ogv
MatroskaMatroska Multimedia Container R W WMPmkv
DVDigital Video Rdv
FLVAdobe Flash Video W WMPflv

Where: R - read, W - write, RM - read metadata, WM - write meta, WMP - write multiple pages

BioImage Convert

This application is a command line image conversion utility. It can read and write many image formats, extract ROI and meta-data stored in images. Accepted formats are: BioRad PIC, TIFF, Metamorph STK (uncompressed and LZW compressed), Fluoview TIFF, Carl Zeiss LSM 5, PSIA TIFF, Nanoscope II/III, JPEG, PNG, BMP, IBW, OME, RAW.