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DIGITAL.CSIC
Dataset . 2025 . Peer-reviewed
Data sources: DIGITAL.CSIC
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[Dataset] APOST-3D: Chemical concepts from wavefunction analysis

Authors: Salvador, Juan Pablo; Ramos-Cordoba, E.; Montilla, M.; Pujal, L.; Gimferrer, M.;

[Dataset] APOST-3D: Chemical concepts from wavefunction analysis

Abstract

Open-source APOST-3D software features a large number of wavefunction analysis tools developed over the past 20 years, aiming at connecting classical chemical concepts with the electronic structure of molecules. APOST-3D relies on the identification of the atom in the molecule (AIM), and several analysis tools are implemented in the most general way so that they can be used in combination with any chosen AIM. Several Hilbert-space and real-space (fuzzy atom) AIM definitions are implemented. In general, global quantities are decomposed into one- and two-center terms, which can also be further grouped into fragment contributions. Real-space AIM methods involve numerical integrations, which are particularly costly for energy decomposition schemes. The current version of APOST-3D features several strategies to minimize numerical error and improve task parallelization. In addition to conventional population analysis of the density and other scalar fields, APOST-3D implements different schemes for oxidation state assignment (effective oxidation state and oxidation states localized orbitals), molecular energy decomposition schemes, and local spin analysis. The APOST-3D platform offers a user-friendly interface and a comprehensive suite of state-of-the-art tools to bridge the gap between theory and experiment, representing a valuable resource for both seasoned computational chemists and researchers with a focus on experimental work. We provide an overview of the code structure and its capabilities, together with illustrative examples.

The APOST-3D program runs using the apost3d executable located in $APOST3D_PATH. ## Load the compiler (alternatively, load the appropriate modules) ## source /opt/intel/oneapi/setvars.sh intel64 ## Set number of threads, stacksize and limits ## export OMP_NUM_THREADS=48 export KMP_STACKSIZE=100m ulimit -s unlimited ## Execute the program ## $APOST3D_PATH/apost3d name-input > name-output.apost Important: A name-input.fchk and name-input.inp files must be in the folder. A detailed description of the input file format is provided in the Documentation.

Peer reviewed

Country
Spain
Related Organizations
Keywords

http://metadata.un.org/sdg/3, Ensure healthy lives and promote well-being for all at all ages

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
0
Average
Average
Average