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Category: Macinchem Blog

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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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Jupyter Notebook Macinchem Blog Science Apps

ShEPhERD: Shape, Electrostatics, and Pharmacophore Explicit Representation Diffusion

23 November 202423 November 2024 chris

A really interesting preprint caught my attention from Connor Coley’s group at MIT. ShEPhERD diffusing shape, electrostatics, and pharmacophores for bioisosteric drug design https://arxiv.org/abs/2411.04130v1 …

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Hints and Tutorials Macinchem Blog Vortex Scripts

Vortex script to export multiple workspaces to individual sdf files.

19 November 202419 November 2024 chris

Sometimes when I’m comparing multiple datasets I end up with 10-20 different Vortex workspaces, for example if I’m comparing commercial screening collections from different vendors.

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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

BMCS-CICAG Hot Topics: Robotics and Automation

15 November 202415 November 2024 chris

The next online Hot Topics meeting is on Thursday 21st November, 2024 (afternoon). The role of laboratory automation in pharmaceutical research and development is continually

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Hints and Tutorials Macinchem Blog Other Tips

GitHub Copilot for Xcode is now available

15 November 2024 chris

GitHub have announced that GitHub Copilot for Xcode is now available is now available for public preview. Key features of GitHub Copilot for Xcode: You

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Macinchem Blog Other Tips

M4 Mac mini teardown

13 November 202413 November 2024 chris

iFixit provide a detailed disassembly of the new Mac mini, highlighting upgrade options.

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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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Hints and Tutorials Macinchem Blog

Using lwreg with the RDKit cartridge

31 October 202431 October 2024 chris

Fabulous blog post from Greg Landrum, Includes a tutorial on installing PostgreSQL and the cartridge with conda. This post shows how to use the RDKit

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Hints and Tutorials Macinchem Blog Vortex Scripts

Vortex script for Analysis of Categories

29 October 202429 October 2024 chris

I published a page describing a Vortex script for category analysis that I wrote a while back but I thought I’d mention it because I’m

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    @macinchem.bsky.social 2 days

    Cambridge Cheminformatics Network meeting

    The next Cambridge Cheminformatics Network Meeting is 11 November 2026, 4pm UK time at Cambridge Crystallographic Data Centre, Cambridge, UK and Online (Hybrid...
  • View post by on Bluesky

    @macinchem.bsky.social 2 days

    ChemDraft and open-source chemical drawing package

    A reader recently highlighted ChemDraft (https://chemdraft.ai). A lightweight, open-source (Apache-2.0) chemical drawing app for macOS and Windows. It is...
  • View post by on Bluesky

    @macinchem.bsky.social 3 days

    A couple of interesting posts

    I'm seeing an increasing number of useful utilities being developed using AI coding tools NISPO NISPO is an open-source, RDKit-based Python package for generating IUPAC names of molecules....

    https://macinchem.org/2026/11/02/a-couple-of-interesting-posts/
  • View post by on Bluesky

    @macinchem.bsky.social 2 weeks

    Burette Updated

    Burette is a macOS desktop app and Quick Look extension for molecular previews: Mol* 3D, xyzrender SVG, and RDKit grids. There is a review of Burette here it can...
  • View post by on Bluesky

    @macinchem.bsky.social 2 weeks

    Avogadro Updated

    Avogadro is an advanced open source molecular editor and visualization tool. Download and installation instructions are here...
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  • ChemDraft an open-source chemical drawing package
  • A couple of interesting posts
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