Python

Aphelion

Collection
Description

A commercial image analysis software. It's interface allows to easily perform measurements and image analysis. Your actions can be recorded and a macro (in a basic script language) can then be created. Almost no knowledge in programming is needed. You can also use python. A SDK is also available to develop stand alone applications in c++. Additional modules allow to use specific operations (3D operators... Examples of available categories of operators : filtering, edge detection, mathematical morphology, segmentation, Frequency operations, mathematical/logical operations, measurements...

has topic
Bioimage informatics
has function
Image analysis
Image processing
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python-bioformats

Collection
Description
Python-bioformats is a Python wrapper for Bio-Formats, a standalone Java library for reading and writing life sciences image file formats. Bio-Formats is capable of parsing both pixels and metadata for a large number of formats, as well as writing to several formats. Python-bioformats uses the python-javabridge to start a Java virtual machine from Python and interact with it. Python-bioformats was developed for and is used by the cell image analysis software CellProfiler (cellprofiler.org). PyPI record: https://pypi.python.org/pypi/python-bioformats Documentation: http://pythonhosted.org/python-bioformats/ GitHub repository: https://github.com/CellProfiler/python-bioformats Report bugs here: https://github.com/CellProfiler/python-bioformats/issues python-bioformats is licensed under the GPL license to be compatible with the copy of Bio-Formats that is distributed with the package, but is compatible with a BSD license if loci_tools.jar is replaced with SCIFIO jars. See the accompanying file LICENSE for details.
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python-javabridge

Collection
Description
The javabridge Python package makes it easy to start a Java virtual machine (JVM) from Python and interact with it. Python code can interact with the JVM using a low-level API or a more convenient high-level API. PyPI record: https://pypi.python.org/pypi/javabridge Documentation: http://pythonhosted.org/javabridge/ GitHub repository: https://github.com/CellProfiler/python-javabridge Report bugs here: https://github.com/CellProfiler/python-javabridge/issues python-javabridge is licensed under the BSD license. See the accompanying file LICENSE for details.
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pythonxy

Collection
Description

**Python(x,y)** is a free scientific and engineering development software for numerical computations, data analysis and data visualization based on Python programming language, Qt graphical user interfaces and Spyder interactive scientific development environment. Many python libraries related to numerical calculation are packaged, so you do not need to search and install them individually. Included libraries are listed **[here](https://code.google.com/p/pythonxy/wiki/StandardPlugins).**

has function
Analysis
Visualisation
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3D Slicer

Collection
Description

Slicer, or 3D Slicer, is a free, open source software package for visualization and image analysis. 3D Slicer is natively designed to be available on multiple platforms, including Windows, Linux and Mac Os X.

Source code: https://github.com/Slicer/Slicer

3D slicer
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