Evidence map›Paper›PMID 42816452›Full record

ArticleJournal of computational chemistry2026

PyOrbb-Automated Analyses of Orbital-Interaction Mechanisms.

Yuman Hordijk, Steven E Beutick, Xiaobo Sun, Laurens Groot, Tori Gijzen, Jordi Poater, Trevor A Hamlin, F Matthias Bickelhaupt, Célia Fonseca Guerra

Abstract read
In one paragraph

Article in Journal of computational chemistry, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors.

Yuman HordijkDepartment of Chemistry and Pharmaceutical Sciences, AIMMS, Vrije Universiteit Amsterdam, Amsterdam, the Netherlands.ORCID https://orcid.org/0000-0002-0777-4274
Steven E BeutickDepartment of Chemistry and Pharmaceutical Sciences, AIMMS, Vrije Universiteit Amsterdam, Amsterdam, the Netherlands.ORCID https://orcid.org/0000-0001-6672-881X
Xiaobo SunDepartment of Chemistry and Pharmaceutical Sciences, AIMMS, Vrije Universiteit Amsterdam, Amsterdam, the Netherlands.ORCID https://orcid.org/0000-0003-2483-8476
Laurens GrootDepartment of Chemistry and Pharmaceutical Sciences, AIMMS, Vrije Universiteit Amsterdam, Amsterdam, the Netherlands.ORCID https://orcid.org/0009-0007-5693-8662
Tori GijzenDepartment of Chemistry and Pharmaceutical Sciences, AIMMS, Vrije Universiteit Amsterdam, Amsterdam, the Netherlands.ORCID https://orcid.org/0009-0006-9879-9659
Jordi PoaterDepartament de Química Inorgànica i Orgànica & IQTCUB, Universitat de Barcelona, Barcelona, Spain.ORCID https://orcid.org/0000-0002-0814-5074
Trevor A HamlinDepartment of Chemistry and Pharmaceutical Sciences, AIMMS, Vrije Universiteit Amsterdam, Amsterdam, the Netherlands.ORCID https://orcid.org/0000-0002-5128-1004
F Matthias BickelhauptDepartment of Chemistry and Pharmaceutical Sciences, AIMMS, Vrije Universiteit Amsterdam, Amsterdam, the Netherlands.ORCID https://orcid.org/0000-0003-4655-7747
Célia Fonseca GuerraDepartment of Chemistry and Pharmaceutical Sciences, AIMMS, Vrije Universiteit Amsterdam, Amsterdam, the Netherlands.ORCID https://orcid.org/0000-0002-2973-5321

Funding

China Scholarship Council (CSC)Microsoft ResearchNetherlands Organization for Scientific Research (NWO),Open Life ScienceSpanish Ministerio de Ciencia, Innovación y Universidades CEX2021-001202-MSpanish Ministerio de Ciencia, Innovación y Universidades PID2025-170997NB-I00
6 · The paper itself

Abstract

We present PyOrbb, an open-source, user-friendly Python-based program that automates the analysis and visualization of orbital interaction mechanisms between molecular fragments or reactants, based on quantum-chemical computations with the Amsterdam Density Functional (ADF) program. PyOrbb extracts the essential mixing patterns, presents them in an interactively adjustable orbital interaction diagram, and summarizes all relevant quantitative data in a convenient Excel spreadsheet for further analysis. The tool enables efficient interpretation of chemical bonding across a broad range of systems, including examples from organic, inorganic, and supramolecular chemistry. The application runs on macOS and Windows operating systems. PyOrbb is shown to accurately and rapidly visualize relevant bonding mechanisms from the often-overwhelming output of density functional computations.

Indexed as

activation strain modelautomated analysisbonding mechanismdensity functional calculationsmolecular orbital theoryopen‐source software

Identifiers

PMID42816452
PMCPMC13626969

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.