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The atom mapped reactions are visualised with MarvinView (ChemAxon, Budapest, Hungary), which accepts the RXN and SMILES formats as input.
Meta-QC-Chain can take NGS reads in FASTA or FASTQ formats as input.
The tool accepts files in PDB formats as input and outputs the ranks for each model in a tabular format.
We are also planning to accept more tree formats as input (e.g., Nexus and PhyloXML) and to implement more real-time features such as onsite audio/video calls and chat.
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Furthermore, since some programs accept multiple data formats as inputs, publishing them in BioMOBY involves registering multiple services on the registry (one per accepted format), whereas they are published as a single 'interface' in Mobyle.
It can handle files in PDB and Mol2 formats as well as AutoDock input files (PDBQ, PDBQS, PDBQT) and MOPAC input and output files.
Furthermore, the required input formats as well as the obtained output are often incompatible among the tools and thus, a combination of different prediction tools requires additional analysis.
It takes an easy to read and write parameter scan definition file format as input.
The system takes a neutral file in Initial Graphics Exchange Specification IGESS) format as input and translates the information in the file to manufacturing information.
It takes the part in discrete format as input data, analyzing in this way the geometry externally, obtaining the advantage of the possibility of implementing the algorithm in any CAD modeler.
It takes files in ASCII format as input.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com