Which Graph Neural Networks does this skill support?

It supports several GNN architectures including Graph Convolutional Networks (GCN), Graph Attention Networks (GAT), and Message Passing Neural Networks (MPNN).

What is DeepChem used for in machine learning?

DeepChem is used for applying deep learning to chemistry, materials science, and biology, specifically for predicting molecular properties and discovering new drugs.

Can I use DeepChem for protein sequence analysis?

Yes, DeepChem includes loaders for FASTA files and models like ProtBERT specifically designed for biological sequence analysis.

Why is ScaffoldSplitter important for molecular data?

ScaffoldSplitter ensures that molecules with similar core structures are grouped together, preventing data leakage and providing a more accurate measure of how a model generalizes to truly new chemicals.

DeepChem Molecular ML

Name: DeepChem Molecular ML
Author: Microck

byMicrock

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データサイエンスとML

Streamlines molecular machine learning workflows for drug discovery, property prediction, and graph neural network implementation.

概要

DeepChem is a comprehensive toolkit designed to democratize the use of deep learning in the life sciences. This skill enables Claude to guide users through complex cheminformatics tasks, including loading molecular data formats like SMILES and SDF, applying sophisticated featurization methods, and training state-of-the-art models. Whether you are benchmarking on MoleculeNet, predicting ADMET properties, or implementing Graph Neural Networks (GNNs), this skill provides the domain-specific patterns and best practices needed to build robust scientific models.

主な機能

Chemical data loaders for SMILES, SDF, and FASTA protein sequences
81 GitHub stars
Specialized molecular featurization (Circular Fingerprints, GNN graphs, RDKit descriptors)
Pretrained model integration for transfer learning with ChemBERTa and GROVER
Advanced data splitting strategies including Scaffold and Butina splitting to prevent leakage
Support for Graph Neural Networks like GCN, GAT, and MPNN

ユースケース

Analyzing protein sequences and materials properties through deep learning
Predicting toxicity, solubility, and binding affinity for drug discovery
Benchmarking ML models against standardized datasets like Tox21 or BBBP

概要

主な機能

Chemical data loaders for SMILES, SDF, and FASTA protein sequences
81 GitHub stars
Specialized molecular featurization (Circular Fingerprints, GNN graphs, RDKit descriptors)
Pretrained model integration for transfer learning with ChemBERTa and GROVER
Advanced data splitting strategies including Scaffold and Butina splitting to prevent leakage
Support for Graph Neural Networks like GCN, GAT, and MPNN

ユースケース

Analyzing protein sequences and materials properties through deep learning
Predicting toxicity, solubility, and binding affinity for drug discovery
Benchmarking ML models against standardized datasets like Tox21 or BBBP