retrosynthesis

Plan multi-step syntheses and assess feasibility with retrosynthetic tools.

6|2|Updated Jun 11, 2026
One-click install
npx skills add https://github.com/pradyumnasagar/open-research-skills --skill retrosynthesis
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: retrosynthesis
Source: https://github.com/pradyumnasagar/open-research-skills/tree/main/skills/chemoinformatics/retrosynthesis
Command: npx skills add https://github.com/pradyumnasagar/open-research-skills --skill retrosynthesis

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires aizynthfinder, chemformer, rdkit, rdchiral, aizynthtrain, askcos, molecular_transformer, and includes scripts (resource) and references (resource) components.

What problem does it solve?

This Skill helps researchers plan complex syntheses and assess the feasibility of molecules using various retrosynthetic planning tools.

Core Features & Use Cases

  • Retrosynthetic Planning: Utilizes AiZynthFinder, Chemformer, ASKCOS, and RetroSynFormer for retrosynthetic analysis.
  • Synthetic Feasibility: Evaluates the synthetic feasibility of molecules and plans multi-step syntheses.
  • Design Pipelines: Builds synthesis-aware design pipelines for compound generation.
  • Library Screening: Screens libraries for retro-route feasibility.
  • Use Case: When you need to determine the best synthetic route for a target molecule or plan a synthesis for a complex molecule.

Quick Start

Load the retrosynthesis skill to plan a synthesis for the target molecule 'CC(=O)Nc1ccc(C(=O)Nc2cccc(C(F)(F)F)c2)cc1'.

Frequently Asked Questions about retrosynthesis

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I plan multi-step syntheses for complex molecules?

To assess synthetic feasibility, retrosynthetic planning tools evaluate target molecules by analyzing structural complexity and available reaction pathways to determine if multi-step syntheses are practical for compound generation pipelines.

Can I use AiZynthFinder and Chemformer for retrosynthetic analysis?

Yes, you can use AiZynthFinder and Chemformer for retrosynthetic analysis alongside ASKCOS and RetroSynFormer. These frameworks integrate with RDKit and RDChiral to process molecular structures and generate synthetic routes.

What is the best way to screen compound libraries for synthesis feasibility?

The best way to screen compound libraries for synthesis feasibility is applying retrosynthetic planning algorithms to evaluate retro-route viability across the dataset. This identifies synthetically accessible molecules for design pipelines.

Do I need RDKit and RDChiral to run retrosynthesis planning?

Yes, you need RDKit and RDChiral to run retrosynthesis planning because they provide the underlying molecular processing and stereochemistry handling required by frameworks like AiZynthFinder and Molecular Transformer.

How does retrosynthetic planning handle stereochemistry in molecule design?

Retrosynthetic planning handles stereochemistry in molecule design by utilizing RDChiral alongside RDKit to process chiral centers and stereoisomers, ensuring that synthetic routes respect stereochemical constraints during feasibility assessment.

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