Tutorials

Welcome to the OmniGenBench tutorials. We have organized the content into Fundamental Concepts and Case Studies to guide you from theory to practice.

Fundamental Concepts

• Genomic Foundation Models

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  Understand the transition from language models to genomic foundation models.

  Read Part 1

• Task Classification

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  Learn how machine learning tasks are classified within the genomic context.

  Read Part 2

• Core Relationships

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  Explore the relationships between data, tasks, and models in OmniGenBench.

  Read Part 3

• OmniGenBench Workflow

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  Get an overview of the complete workflow for benchmarking and analysis.

  Read Part 4

• Practical Guidelines

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  Best practices and guidelines for using the benchmark effectively.

  Read Part 5

Case Studies

We provide 3 distinct case studies to demonstrate how to apply OmniGenBench to real-world genomic tasks.

• TF Binding Prediction

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  Predict transcription factor binding sites using genomic foundation models.

  Start Tutorial

• Translation Efficiency

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  Estimate ribosome loading and protein production rates from mRNA sequences.

  Start Tutorial

• Variant Effect Prediction

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  Assess the functional impact of variants on gene regulation and expression.

  Start Tutorial