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cheminformatics

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UpdatedJuly 1, 2026 at 10:02

Cheminformatics (mirrors Claude Science's cheminformatics skill). RDKit for descriptors/fingerprints/similarity and molecule drawing, ChEMBL for bioactivity, SAR/screening. Use for small molecules, SMILES, molecular descriptors, ChEMBL, medicinal chemistry. Needs the sci-bio env (rdkit).

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JWM0203

JWM0203/Claude-Science-for-win

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ChemistsLife, Physical, and Social Science Occupations·SOC 19-2031

SKILL.md

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name	cheminformatics
description	Cheminformatics (mirrors Claude Science's cheminformatics skill). RDKit for descriptors/fingerprints/similarity and molecule drawing, ChEMBL for bioactivity, SAR/screening. Use for small molecules, SMILES, molecular descriptors, ChEMBL, medicinal chemistry. Needs the sci-bio env (rdkit).

cheminformatics

rdkit (descriptors/fingerprints/similarity/drawing) + connectors/chembl.py (compounds/ targets/activity).

Standard workflow

Read molecules (SMILES/SDF, inputs/); standardize with RDKit (desalt, canonicalize SMILES).
Descriptors + Morgan fingerprints + similarity matrix; cluster/screen as needed; write script to outputs/.
Bioactivity: python connectors/chembl.py activities <CHEMBL_ID> for IC50/Ki, noting assay and units.
Figures (molecule grid, SAR, similarity heatmap) via figure-maker.

Hard rules

State units and assay conditions; record standardization steps (reviewer checks).

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