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Author: chris

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Reviews Software Reviews

A review of alvaDesc

21 February 202311 May 2023 chris

alvaDesc is a desktop tool for the calculation of a wide range of molecular descriptors and a number of molecular fingerprints from https://www.alvascience.com. alvaDesc can be

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Science Apps Spectroscopy

Spectroscopy page added

18 February 202315 April 2023 chris
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Hints and Tutorials Vortex Scripts

Vortex script to flag duplicates

18 February 202312 April 2023 chris

When working with multiple data sets of molecules, particularly if combining them from multiple sources, one of the most common tasks is removal of duplicates.

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Reviews Software Reviews

A review of BioTransformer

18 February 202318 February 2023 chris

A recent publication described BioTransformer: a comprehensive computational tool for small molecule metabolism prediction and metabolite identification DOI. There are a number of tools that predict

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Reviews Software Reviews

A review of Vortex

18 February 202312 March 2023 chris

Whilst the Mac has an increasing share of the Biology or Physics desktop, expansion in Chemistry has been limited due to the availability of key

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Hints and Tutorials Other Tips

Useful Unix commands

18 February 202321 April 2023 chris

I’m regularly handling very large files containing millions for chemical structures and whilst BBEdit is my usual tool for editing text files in practice it

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Reviews

Cheminformatics and CompChem on Apple Silicon

18 February 202318 February 2023 chris

Cheminformatics and CompChem on Apple Silicon We all know that this new architecture is blazingly fast for video editors but what about us chemists? List of

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Data Analysis Tools Reviews Software Reviews

Open Source Python Data Science Libraries

17 February 202329 January 2026 chris

When I wrote the article entitled A few thoughts on scientific software one of the responses I got was that people did not know about the existence

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Reviews Software Reviews

Open Source Cheminformatics Toolkits

17 February 202329 January 2026 chris

When I wrote the article entitled A few thoughts on scientific software one of the responses I got was that people did not know about the existence

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Hints and Tutorials Jupyter Notebook

Jupyter Notebook for docking either locally or using Colab

17 February 202317 February 2023 chris

Here are two variations of a Jupyter Notebook to help with docking experiments. The first version runs locally and requires the user to install RDKit,

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Posts pagination

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  • View post by on Bluesky

    @macinchem.bsky.social 3 days

    RSC CICAG Chemical Structure Representations Meeting 2026 

    I've just signed up for the meeting, hope to see you there at Burlington House, London, UK Wednesday 8th April 2026 A one-day conference...

    https://macinchem.org/2026/04/01/rsc-cicag-chemical-structure-representations-meeting-2026-2/
  • View post by on Bluesky

    @macinchem.bsky.social 4 days

    Mole2D molecule drawing package

    Mole2D is a lightweight molecule drawing package written in Python and PyQt6. All code is on GitHub https://github.com/sfmlab/mole2d and it requires RDKit and PyQt6.. PubChem lookup...

    https://macinchem.org/2026/03/31/mole2d-molecule-drawing-package/
  • View post by on Bluesky

    @macinchem.bsky.social 7 days

    RDKit Updated

    An update to RDKit has been released 2026_03_1 (Q1 2026). Highlights A significant number of known SMILES canonicalization problems were resolved. It's now possible to provide your own matching...
  • View post by on Bluesky

    @macinchem.bsky.social 1 week

    RSC CICAG Chemical Structure Representations Meeting 2026
    Burlington House, London, UK
    Wednesday 8th April
    registrations.hg3conferences.co.uk/hg3/frontend...
    Fabulous line up of speakers.
  • View post by on Bluesky

    @macinchem.bsky.social 1 week

    Uniprot ID to target name and bio activities

    Sometimes target identification studies can just turn up a list of Uniprot IDs, whilst there are a number of places you can go to find out more information I...

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  • RSC CICAG Chemical Structure Representations Meeting 2026 
  • Mole2D molecule drawing package
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