| Version | MAJ | circos | ||
| 0.64 | 2013-01-20 | Download | Doc |
Circos is a software package for visualizing data and information. It
visualizes data in a circular layout — this makes Circos ideal for exploring
relationships between objects or positions. There are other reasons why a
circular layout is advantageous, not the least being the fact that it is
attractive.
Remarque
| Run Unix # circos | Run Web # |
| Version | MAJ | coot | ||
| 0.7 | 2014-05-20 | Download | Doc |
Coot is for macromolecular model building, model completion and validation, particularly suitable for protein modelling using X-ray data.
Coot displays maps and models and allows model manipulations such as idealization, real space refinement, manual rotation/translation, rigid-body fitting, ligand search, solvation, mutations, rotamers, Ramachandran plots, skeletonization, non-crystallographic symmetry and more.
Remarque Citing Coot and Friends If have found this software to be useful, you are requested (if appropriate) to cite: "Features and Development of Coot" P Emsley, B Lohkamp, W Scott, and K Cowtan Acta Cryst. (2010). D66, 486-501 Acta Crystallographica Section D-Biological Crystallography 66: 486-501
| Run Unix # coot | Run Web # |
| Version | MAJ | igv | ||
| 2.3.67 | 2016-01-11 | Download | Doc |
The Integrative Genomics Viewer (IGV) is a high-performance visualization tool for interactive exploration of large, integrated genomic datasets. It supports a wide variety of data types, including array-based and next-generation sequence data, and genomic annotations.
Remarque To cite your use of IGV in your publication: James T. Robinson, Helga Thorvaldsdóttir, Wendy Winckler, Mitchell Guttman, Eric S. Lander, Gad Getz, Jill P. Mesirov. Integrative Genomics Viewer. Nature Biotechnology 29, 24–26 (2011)
| Run Unix # igv | Run Web # |
| Version | MAJ | KronaTools | ||
| 2.6 | 2016-01-13 | Download | Doc |
Krona Tools is a set of scripts to create Krona charts from several
Bioinformatics tools as well as from text and XML files.
Remarque
| Run Unix # | Run Web # |
| Version | MAJ | matrix2png | ||
| 1.2.1 | 2011-05-30 | Download | Doc |
Matrix2png is a simple but powerful program for making visualizations of microarray data and many other data types. It generates PNG formatted images from text files of data. It is fast, easy to use, and reasonably flexible. It can be used to generate publication-quality images, or to act as a image generator for web applications. Our group has found it useful for imaging all kinds of matrix-based data, not just microarray data.
Remarque If you use images created with matrix2png for publication or presentation, please cite:Pavlidis, P. and Noble W.S. (2003) Matrix2png: A Utility for Visualizing Matrix Data. Bioinformatics 19: 295-296 (abstract).Readers of the Bioinformatics application note: Here is the color version of the figure from the paper (pdf format).
| Run Unix # matrix2png | Run Web # |
| Version | MAJ | phenix | ||
| 1.8.1 | 2012-12-12 | Download | Doc |
PHENIX is a software suite for the automated determination of macromolecular structures using X-ray crystallography and other methods.
Remarque Citing PHENIX: PHENIX: a comprehensive Python-based system for macromolecular structure solution. P. D. Adams, P. V. Afonine, G. Bunkóczi, V. B. Chen, I. W. Davis, N. Echols, J. J. Headd, L.-W. Hung, G. J. Kapral, R. W. Grosse-Kunstleve, A. J. McCoy, N. W. Moriarty, R. Oeffner, R. J. Read, D. C. Richardson, J. S. Richardson, T. C. Terwilliger and P. H. Zwart. Acta Cryst. D66, 213-221 (2010).
| Run Unix # phenix | Run Web # |
| Version | MAJ | showVenn | ||
| 1.0 | 2010-02-26 | Download | Doc |
Cet outil permet de manipuler des listes d'identifiants sous la forme d'un diagramme de Venn. On peut ainsi trouver les éléments en commun ou originaux de 5 listes différentes. En cliquant sur les différents territoires du diagramme, l'utilisateur récupère les identifiants qui correspondent au sous ensemble sélectionné.
Remarque
| Run Unix # | Run Web # http://tomcat.jouy.inra.fr/Venn/ |
