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=<span style="color:DarkGreen;">Computational biology toolboxes= | =<span style="color:DarkGreen;">Computational biology toolboxes= | ||
==<span style="color:DarkGreen;">GFtbox== | |||
{| border="0" cellpadding="5" cellspacing="5" | {| border="0" cellpadding="5" cellspacing="5" | ||
|- valign="top" | |- valign="top" | ||
|width="10%"| <imgicon>GPT-logo-460.png| | |width="10%"| <imgicon>GPT-logo-460.png|80px|GFtbox</imgicon> | ||
|width=" | |width="40%"| (Matlab: PC, Mac, Linux) | ||
For modelling the growth of shapes from patterns of growth factor activity. <br>[[GFtbox|''Details'']]<br>[[https://sourceforge.net/p/gftbox/|''Download'']] | For modelling the growth of shapes from patterns of growth factor activity. <br>[[GFtbox|''Details'']]<br>[[https://sourceforge.net/p/gftbox/|''Download'']] | ||
|width=" | |width="50%"| An implementation of the Growing Polarised Tissue Framework for understanding and modelling the relationship between gene activity and the growth of shapes such leaves, flowers and animal embryos. | ||
|} | |} | ||
==<span style="color:DarkGreen;">VolViewer== | |||
{| border="0" cellpadding="5" cellspacing="5" | {| border="0" cellpadding="5" cellspacing="5" | ||
|width="10%"| <imgicon>VolViewer-logo.png| | |width="10%"| <imgicon>VolViewer-logo.png|80px|VolViewer</imgicon> | ||
|width=" | |width="40%"|(PC: Windows, web client - graphics processor on server) | ||
For viewing and measuring 3D volume images. <br>[[VolViewer|'''Details''']]<br>''Download'' | For viewing and measuring 3D volume images. <br>[[VolViewer|'''Details''']]<br>''Download'' | ||
|width=" | |width="50%"| The C++ code exploits high end graphics cards by making extensive use of [http://www.opengl.org/ OpenGL] and [http://qt.nokia.com/products/ Qt]. It is open-source and forms a part of the Open Microscopy Environment ([http://openmicroscopy.org/site OME]). | ||
|} | |} | ||
=<span style="color:DarkGreen;">Computational biology systems to which we contribute= | ==<span style="color:DarkGreen;">Computational biology systems to which we contribute== | ||
===<span style="color:DarkGreen;">BioformatsConverter=== | |||
{| border="0" cellpadding="5" cellspacing="5" | {| border="0" cellpadding="5" cellspacing="5" | ||
|- valign="top" | |- valign="top" | ||
|width=" | |width="10%"| <imgicon>BioformatsConverterZip.png|100px|BioformatsConverter</imgicon> | ||
|width=" | |width="40%"| (PC: Windows) | ||
For converting microscope manufacturer proprietary file formats. <br>'''Details'''<br>''Download'' | For converting microscope manufacturer proprietary file formats. <br>'[[BioformatsConverter|'''Details''']]<br>''Download'' | ||
|width=" | |width="50%"| This tool allows for the batch conversion of microscope manufacturer proprietary file formats, to the open source OME-TIFF standard. | ||
|} | |||
===<span style="color:DarkGreen;">OMERO=== | |||
{| border="0" cellpadding="5" cellspacing="5" | |||
|- valign="top" | |- valign="top" | ||
|width=" | |width="10%"| <imgicon>OMERO_DIAGRAM.jpg|100px|OMERO</imgicon> | ||
|width=" | |width="40%"| (web client - SQL server) | ||
For working with the OME image database. <br>'''Details'''<br>''Download'' | For working with the OME image database. <br>'''Details'''<br>''Download'' | ||
|width=" | |width="50%"| [http://openmicroscopy.org/site/support/omero4 Open Microscopy Environment Remote Objects (OMERO).] for visualising, managing, and annotating scientific image data. | ||
|} | |} | ||
=Algorithms, demonstrations and tools= | =Algorithms, demonstrations and tools= | ||
Revision as of 17:22, 4 May 2011
Computational biology toolboxes
GFtbox
| <imgicon>GPT-logo-460.png|80px|GFtbox</imgicon> | (Matlab: PC, Mac, Linux)
For modelling the growth of shapes from patterns of growth factor activity. |
An implementation of the Growing Polarised Tissue Framework for understanding and modelling the relationship between gene activity and the growth of shapes such leaves, flowers and animal embryos. |
VolViewer
| <imgicon>VolViewer-logo.png|80px|VolViewer</imgicon> | (PC: Windows, web client - graphics processor on server)
For viewing and measuring 3D volume images. |
The C++ code exploits high end graphics cards by making extensive use of OpenGL and Qt. It is open-source and forms a part of the Open Microscopy Environment (OME). |
Computational biology systems to which we contribute
BioformatsConverter
| <imgicon>BioformatsConverterZip.png|100px|BioformatsConverter</imgicon> | (PC: Windows)
For converting microscope manufacturer proprietary file formats. |
This tool allows for the batch conversion of microscope manufacturer proprietary file formats, to the open source OME-TIFF standard. |
OMERO
| <imgicon>OMERO_DIAGRAM.jpg|100px|OMERO</imgicon> | (web client - SQL server)
For working with the OME image database. |
Open Microscopy Environment Remote Objects (OMERO). for visualising, managing, and annotating scientific image data. |