Build bioinformatics applications with this tool. The Structural Proteomics Application Development Environment (SPADE) is a free, Python-based, structural biology analysis and modeling toolkit, for developing and deploying bioinformatics applications. Handles graphics, analysis, and modeling of protein sequence and structure. Source and Win installers available.

In addition to standard structural bioinformatics accessories (molecular viewer, solvent accessibility calculation, secondary structure recognition, protonation and hydrogen bond calculation), SPADE offers algorithms for fold recognition alignment, pairwise or multiple structure alignment, efficient nearest neighbor collection, standardized project and code file organization, undo/redo functionality, with a slew of other features and usability enhancements.

SPADE users download new datasets and software applications using built-in automated software deployment tools. This arrangement allows a bazaar-like commercial model where developers create SPADE-ready applications to provide either for free or for a charge. Registration of at-cost software applications with SPADEweb requires developers pay a fee to access the deployment tools, and to post information and documentation on SPADEweb. This covers overhead for the project, including code and website maintenance, and costs associated with project dissemination.

Two applications are currently available through SPADE. SequencePad is a sequence alignment editor that applies an interactive phylogenetic tree window to assist deliberate sequence selection, a critical standard for proper evolutionary conservation analysis and protein-protein interface patch prediction. RAVE is a toolkit that facilitates the application of reactive probes and mass spectrometry toward determining the details of protein structures and empirical verification of models for macromolecular structures. RAVE saved projects can be viewed with a BSD-licensed toolkit but generating new projects is not free. SequencePad is free.

The resulting project and organization strongly encourage development of marketable strategies in the field of structural biology, including independent public and proprietary software development contracts, as well as incorporation of existing specialized public and proprietary software into this highly capable, open source front-end. Potential also exists for use in the class room setting, and detailed instruction manuals can be produced. A general bioinformatics text should be adapted from existing works using SPADE to illustrate concepts.

Requirements:
* Python

The license of this software is Free, you can free download and free use this cad software.