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Systrip

Presentation | Screen captures and videos | Download | Contact

Presentation

Systrip is a visual environment for the analysis of time-series data in the context of biological networks.

Systrip gathers bioinformatics and graph theoretical algorithms that can be assembled in different ways to help biologists in their visual mining process.

This framework had been used to analyse various real biological data

Some key features :

  • SBML file import and export.
  • Multiple kind of metabolic network representations (3D, force directed, biological convention preserving, hierachical ...).
  • Both graph theoritical measures and metabolic network analysis algorithms (choke points, scope, centrality...).
  • Time-series data import and visualization (table view, parallel coordinates, scatter plot).
  • Visualization of time-series in the context of the metabolic network.
  • 3D molecular visualization.
  • Database querry tools (Kegg, PublicHouse).

Download the presentation of Systrip made the 26th April 2011 for the biologist and the bioinformatician of Bordeaux 2.PDF icon

Screen captures and videos

Screen captures

Videos

  • Systrip presentation

    Presentation of the Systrip features.

    You can download the data used in this video in the samples ( DFMODataset ), see the download section.

  • Glucose metabolomic network analysis

    This video shows an analysis of the metabolic data generated by Metaboflux concerning flexibility of glucose metabolism network in the T. brucei parasite when the excretion of acetate increase from 1 to 99%, with a 5% increment.

  • Visualizing elements shared by two networks

    This video shows how to visualize shared elements by two different networks using a SBML file containing the union of the elements of the two networks and a CSV file with the origin of each element. The approach taken is to automatically annotate the Mollicute genomes (Phytoplasma and Mycoplasma) using RAST and reconstruct their metabolic network from the annotated genome using SEED.

    With the reconstructed metabolic networks, we then "merge" them using Rast2Systrip.

    You can download the data used in this video in the samples, see the download section.

Downloads

If you work with windows use the Windows installer.

If you work with linux you have to compile Systrip yourself. Download the Tulip and Systrip source package and refer to the Compilation instructions to see how to compile it.

Binaries

Source code packages

Other

If you have trouble with Systrip mail the project maintainer or use the Tulip forum.

Contact

Dubois Jonathan (project maintainer)

Email: dubois@labri.fr

Romain Bourqui (project maintainer)

Email: bourqui@labri.fr

Presentation | Screen captures and videos | Download | Contact