ct3d/at3d Cell Tracking Tools ct3d is a command-line tool for tracking cells in
time series of 2D images or 3D image stacks. ct3d
performs the basic cell tracking as a command line
tool. Visualization, exploration, and evalutation of the results can
be done through the graphical user interface of at3d.
ct3d Version
0.1 source code versionct3d Version
0.1 Linux
binaries (64 bit)ct3d Version
0.1 Mac
binariesct3d Version
0.1 Windows
binariesat3d Version
0.1 source code versionat3d Version
0.1 Linux
binaries (64 bit)at3d Version
0.1 Mac
binariesat3d Version
0.1 Windows
binariesct3d
requires libtiff as well
as lpsolve Version
5.5. at3d requires libtiff
and qt. Make sure all these
packages are properly installed.
After downloading the source code versions of ct3d
and at3d, type make in the corresponding
paths to build the program.
Binary versions are currently available for Linux (64 bit) and MacOS.
Linux: Make sure you have all required libraries properly
installed (libtiff as well
as lpsolve Version
5.5 for ct3d, as well
as libtiff
and qt
for at3d). Download and unpack the files linked above,
and launch the programs AT3D and CT3D from
the command line. Note that all binaries are compiled for 64 bit
systems only.
MacOS: For launching ct3d, make sure that
both libtiff as well
as lpsolve Version
5.5 are properly installed, and
your DYLD_LIBRARY_PATH points to the
respective .dyld files of these libraries.
The binary version of at3d includes all
dependant libraries. Downlaod and unpack the compressed archive
file. at3d can be launched by
clicking AT3D.app in the finder, or typing open
AT3D.app in a shell window.
For a brief introduction including a sample dataset, refer to the Getting Started page.
ct3d is published under
the GPLv3.
ct3d
uses Emil
Stefanov's implementation of the disjoint sets data structure for
constructing component trees.