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Welcome to LBFextract’s documentation!

Contents:

• Learn about LBFextract
  • Introduction
  • installation
  • Singularity Image isntallation
  • Coming Soon: Installation via pip (PyPI)
  • Computational requirements
  • usage
  • Paper/Citation
• Get started
  • cli tutorial
  • Results
  • GC correction
  • tui tutorial
  • python api tutorial
• Examples
  • Coverage
  • Fragment Length Distribution
• Differential Transcription Factor Activity Analysis
• LBFextract tutorial
• 1. Installation
• 2. CLI inerface
• 3. Python interface
• 4. Differentially active Transcription Factors (TFs)
• Plugins
• Contributing Guidelines
  • Ways to Contribute
  • Getting Started
  • Code of Conduct
  • Enforcement Responsibilities
  • Scope
  • Enforcement
  • Attribution

API:

• LBFfextract package
  • Module contents
• fextract package
  • Module contents
  • Subpackages
  • Submodules
  • fextract.autocompletion module
  • fextract.cli module
  • fextract.cli_lib module
  • fextract.core module
  • fextract.feature_extractor module
  • fextract.generate_plugin_structure module
  • fextract.hookspecs module
  • fextract.lib module
  • fextract.pluggin_manager module
  • fextract.schemas module
  • fextract.setup_conda_env module
  • fextract.signal_transformer module
  • fextract.utils module
  • fextract.utils_classes module
• fextract_entropy package
  • Submodules
  • fextract_entropy.plugin module
  • fextract_entropy.schemas module
  • fextract_entropy.signal_summarizers module
  • Module contents
• fextract_fragment_length_distribution package
  • Submodules
  • fextract_fragment_length_distribution.plugin module
  • fextract_fragment_length_distribution.schemas module
  • fextract_fragment_length_distribution.signal_summarizers module
  • Module contents
• fextract_relative_entropy_to_flanking package
  • Submodules
  • fextract_relative_entropy_to_flanking.plugin module
  • Module contents
• fextract_batch_coverage package
  • Submodules
  • fextract_batch_coverage.plugin module
  • fextract_batch_coverage.schemas module
  • Module contents
• fextract_batch_entropy package
  • Submodules
  • fextract_batch_entropy.plugin module
  • Module contents
• fextract_fragment_length_distribution_in_batch package
  • Submodules
  • fextract_fragment_length_distribution_in_batch.plugin module
  • Module contents
• fextract_fragment_length_ratios package
  • Submodules
  • fextract_fragment_length_ratios.plugin module
  • Module contents
• plotting_lib package
  • Submodules
  • plotting_lib.plotting_functions module
  • Module contents
• transcription_factor_analysis package
  • Submodules
  • transcription_factor_analysis.differential_signal_analysis module
  • transcription_factor_analysis.accessibility_extraction module
  • transcription_factor_analysis.loaders module
  • transcription_factor_analysis.utils module
  • transcription_factor_analysis.schemas module
  • Module contents

Indices and tables

• Index

• Module Index

• Search Page