Fast, efficient fragment-based coordinate generation for Open Babel
N Yoshikawa, GR Hutchison - Journal of cheminformatics, 2019 - Springer
… We introduce a fragment-based coordinate generation implementation for Open Babel, a
widely-used open source toolkit for cheminformatics. The new implementation improves speed …
widely-used open source toolkit for cheminformatics. The new implementation improves speed …
The ChemicalToolbox: reproducible, user-friendly cheminformatics analysis on the Galaxy platform
Here, we introduce the ChemicalToolbox, a publicly available web server for performing
cheminformatics analysis. The ChemicalToolbox provides an intuitive, graphical interface for …
cheminformatics analysis. The ChemicalToolbox provides an intuitive, graphical interface for …
Open-source machine learning in computational chemistry
A Hagg, KN Kirschner - … of Chemical Information and Modeling, 2023 - ACS Publications
… To this end, we also include computational chemistry open-source software for generating
… machine learning work, open data, open source (code), and open models, we provide some …
… machine learning work, open data, open source (code), and open models, we provide some …
POAP: A GNU parallel based multithreaded pipeline of open babel and AutoDock suite for boosted high throughput virtual screening
A Samdani, U Vetrivel - Computational biology and chemistry, 2018 - Elsevier
… Here we present a GNU Parallel based pipeline-POAP that is programmed to run Open Babel
and AutoDock suite under highly optimized parallelization. The ligand preparation module …
and AutoDock suite under highly optimized parallelization. The ligand preparation module …
Using SMILES strings for the description of chemical connectivity in the Crystallography Open Database
M Quirós, S Gražulis, S Girdzijauskaitė… - Journal of …, 2018 - Springer
… chemical formats. In our case the input is CIF and the output is SMILES. Open Babel has been
chosen because it is open … At the moment of writing this paper Open Babel version 2.4.1 is …
chosen because it is open … At the moment of writing this paper Open Babel version 2.4.1 is …
[PDF][PDF] The ChemicalToolBox–Computational Chemistry in Galaxy
… Furthermore, apart from the features of the ChemicalToolbox itself, the inherent flexibility
of the Galaxy system allows combination of the ChemicalToolbox with existing platforms …
of the Galaxy system allows combination of the ChemicalToolbox with existing platforms …
Recent advances in the open access cheminformatics toolkits, software tools, workflow environments, and databases
… Open Babel is an open-source chemical toolbox intended to be a cross-platform library that
… In summary, Open Babel offers a solution to deal with the growing number of chemical file …
… In summary, Open Babel offers a solution to deal with the growing number of chemical file …
ORBKIT: A modular python toolbox for cross‐platform postprocessing of quantum chemical wavefunction data
ORBKIT is a toolbox for postprocessing electronic structure calculations based on a highly
modular and portable Python architecture. The program allows computing a multitude of …
modular and portable Python architecture. The program allows computing a multitude of …
Using SMILES strings for the description of chemical connectivity in the Crystallography Open Database
M Quirós Olozábal, S Gražulis, S Girdzijauskaitė… - 2018 - digibug.ugr.es
… chemical formats. In our case the input is CIF and the output is SMILES. Open Babel has been
chosen because it is open … At the moment of writing this paper Open Babel version 2.4.1 is …
chosen because it is open … At the moment of writing this paper Open Babel version 2.4.1 is …
molSimplify: A toolkit for automating discovery in inorganic chemistry
… We present an automated, open source toolkit for the first-principles screening and
discovery of new inorganic molecules and intermolecular complexes. Challenges remain in the …
discovery of new inorganic molecules and intermolecular complexes. Challenges remain in the …
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