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Tag: compchem

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Hints and Tutorials Macinchem Blog

Using VMD and Gromacs on M4 Macs

4 December 202413 January 2025 chris

A reader asks about running VMD and installing Gromacs on M4 Macs. I don’t use either application and looking on the VMD website there is

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Hints and Tutorials Macinchem Blog Science Apps

Boltz-1:Democratizing Biomolecular Interaction Modeling

18 November 202418 November 2024 chris

The Jameel Clinic have just released Boltz-1, an open-source model designed to accurately model complex biomolecular interactions. Boltz-1 is an open-source model which predicts the

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Macinchem Blog Science Apps

ORCA has been updated

8 November 20248 November 2024 chris

A new version of ORCA has been released, this is a bug fix version of 6.0 ORCA is a powerful and versatile quantum chemistry software

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Macinchem Blog Science Apps

MOE updated

18 August 202418 August 2024 chris

The integrated molecular design platform MOE 2024.06 has been released. New features include: * Capture – Document and Share Design Sessions * Pharmacophore-guided High-throughput Biologics Virtual

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Macinchem Blog Science Apps

ORCA 6.0.0 has been released

28 July 202428 July 2024 chris

ORCA 6.0 was released to the public on July 25th, 2024. ORCA is a powerful and versatile quantum chemistry software package, primarily developed by the

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Macinchem Blog Science Apps

Molsoft ICM-Pro update and new products

9 June 20249 June 2024 chris

The ICM-Pro + VLS software has undergone significant updates and improvements in its built-in functionalities for modeling, docking, GUI, and visualization. These enhancements include pre-built

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Hints and Tutorials Macinchem Blog Science Apps

Sort & Slice: A Simple and Superior Alternative to Hash-Based Folding for Extended-Connectivity Fingerprints

4 June 20244 June 2024 chris

An interesting alternative to hash-based folding on arXiv. https://arxiv.org/abs/2403.17954 Code is on GitHub https://github.com/MarkusFerdinandDablander/ECFP-substructure-pooling-Sort-and-Slice

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Macinchem Blog Software Reviews

Sire paper out.

1 June 20241 June 2024 chris

Sire is a Python/C++ library that is used both to prototype new algorithms and as an interoperability engine for exchanging information between molecular simulation programs.

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Macinchem Blog Science Apps

Rowan update

17 May 202417 May 2024 chris

There have been a number of updates to Rowan largely based on feedback from users. Rowan is a software platform that makes it possible to run

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Macinchem Blog Science Apps

Amsterdam Modeling Suite 2024

14 May 202414 May 2024 chris

The Amsterdam Modeling Suite 2024 has just been released. The Amsterdam Modeling Suite is used by researchers in all areas of chemistry, materials science, and

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Avatar Chris Swain @macinchem ·
6 Feb

Looking at TabPFN with Polaris datasets https://macinchem.org/2025/02/06/looking-at-tabpfn/ #cheminformatics

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Avatar RSC_CICAG @rsc_cicag ·
3 Feb

Don't forget to register for @RSC_BMCS Conformation Design in #DrugDiscovery conference on 3rd March! … #chemistry #medicinalchemistry #NMR #computationalchemistry #biologists

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Avatar Rowan @rowansci ·
31 Jan

RDKit is the standard software for cheminformatics, but RDKit doesn’t integrate naturally with high-accuracy chemistry simulation tools.

Starting from RDKit, it's non-trivial to simulate pKa, optimize conformers w/ ML, score tautomers, &c. There are many posts like this:

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Avatar Chris Swain @macinchem ·
31 Jan

Tabular Prior-data Fitted Network (TabPFN), a tabular foundation model on Apple Silicon. https://macinchem.org/2025/01/31/tabpfn-on-apple-silicon/

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