Tag: CellDesigner

CellDesigner 4.4.2 – Biochemical Networks Modeling Tool

CellDesigner 4.4.2

:: DESCRIPTION

CellDesigner is a structured diagram editor for drawing gene-regulatory and biochemical networks. Networks are drawn based on the process diagram, with graphical notation system proposed by Kitano, and are stored using the Systems Biology Markup Language (SBML), a standard for representing models of biochemical and gene-regulatory networks. Networks are able to link with simulation and other analysis packages through Systems Biology Workbench (SBW).

::DEVELOPER

Systems Biology Institute

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

CellDesigner ; Tutorial

:: MORE INFORMATION

CellDesigner is free to use >> License text

Citation

SBSI CellDesigner Plugin 20111025 – Bridge Functionalities of CellDesigner & SBSI

SBSI CellDesigner Plugin 20111025

:: DESCRIPTION

SBSI CellDesigner Plugin is to bridge the functionalities of CellDesigner and SBSI. This way a user will have the ability to design his models in CellDesigner and then optimize them using SBSI without the need to switch between programs thus raising his productivity.

SBSI CellDesigner Plugin draws a model that is already open in CellDesigner and using a dialog, helps the user to configure the optimization for the particular model. The dialog prevents the user from creating a configuration that is not compatible with the optimization framework. On top of that it provides the user the ability to track any jobs that have been submitted to a remote server and with the ability to plot the results of the optimization.

::DEVELOPER

Centre for Systems Biology at University of Edinburgh

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

SBSI CellDesigner Plugin

:: MORE INFORMATION

Payao Uploader 1.0 – CellDesigner Plugin to Upload Model to Payao

Payao Uploader 1.0

:: DESCRIPTION

Payao Uploader is to allow the user to upload CellDesigner pathway models to Payao system – a web-based community curation platform

::DEVELOPER

Systems Biology Institute

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

Payao Uploader ; Manual

:: MORE INFORMATION

Compatibility: Built for CellDesigner 4.1.

Merge Models 1.03 – CellDesigner Plugin to Merge Models

Merge Models 1.03

:: DESCRIPTION

Merge Models is a CellDesigner plugin. The purpose of Merge Models is to allow the user to merge different biological pathway models and build new pathway maps. It also provides the ability to analysis two or more models for merging, to identify the duplicate species and highlight them on the merged model map.

::DEVELOPER

Systems Biology Institute

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

Merge Models ; Manual

:: MORE INFORMATION

Compatibility: Built for CellDesigner 4.1.

Import Notes 1.1 – CellDesigner Plugin, Import Notes Data from CSV File

Import Notes 1.1

:: DESCRIPTION

CellDesigner allow developers to supply  Plugins to extend the function of CellDesigner.

Import Notes is used  to import notes data from CSV file.

::DEVELOPER

N/A

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

Import Notes

:: MORE INFORMATION

Work in CellDesigner 4.0  and above.