Contents

• Janggu - Deep learning for Genomics
  • Hallmarks of Janggu:
  • Getting started
  • Why the name Janggu?
• Tutorial
  • Part I) Introduction to Genomic Datasets
  • Part II) Building a neural network with Janggu
  • Part III) Evaluation and interpretation of the model
• Genomic Datasets
  • General principle of the Genomics Datasets
  • Normalization
  • Granularity of the coverage
  • Caching
  • Dataset storage
  • Converting Numpy to Cover
  • Evaluation features
  • Rearranging channel dimensions
  • Wrapper Datasets
  • Different views datasets
  • Randomized dataset
• Output directory configuration
• Customize Evaluation
  • Score callable
  • Exporter callable
  • Custom example scorers
• Command line tools
  • janggu
  • janggu-trim
• API
  • janggu.data - Genomics datasets for deep learning
  • janggu - Utilities for creating, fitting and evaluating models
  • Performance score utilities
  • Decorators for network construction
  • Genomics-specific keras layers
• Contributing
  • Bug reports
  • Documentation improvements
  • Feature requests and feedback
  • Development
• Authors
• Changelog
  • 0.10.2 (2021-09-29)
  • 0.10.1 (2021-06-28)
  • 0.10.0 (2020-10-01)
  • 0.9.9 (2020-08-04)
  • 0.9.8 (2020-07-13)
  • 0.9.7 (2020-05-07)
  • 0.9.6 (2020-02-26)
  • 0.9.5 (2019-10-17)
  • 0.9.4 (2019-07-15)
  • 0.9.3 (2019-07-08)
  • 0.9.2 (2019-05-04)
  • 0.9.1 (2019-05-03)
  • 0.9.0 (2019-03-20)
  • 0.8.6 (2019-03-03)
  • 0.8.5 (2019-01-09)
  • 0.8.4 (2018-12-11)
  • 0.8.3 (2018-12-05)
  • 0.8.2 (2018-12-04)
  • 0.8.1 (2018-12-03)
  • 0.8.0 (2018-12-02)
  • 0.7.0 (2018-12-01)

Indices and tables

• Index
• Module Index
• Search Page