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PANORAMA

  • User Documentation
  • Modeler Documentation
  • Developer documentation
  • API Reference
    • PANORAMA
    • PPanGGOLiN
    • LABGeM
  • GitHub
  • User Documentation
  • Modeler Documentation
  • Developer documentation
  • API Reference
  • PANORAMA
  • PPanGGOLiN
  • LABGeM
  • GitHub

Section Navigation

Get Started:

  • Installation Guide ๐Ÿฆฎ
  • Quick usage ๐Ÿฆ…
    • Complete Biological Systems Prediction Workflow
    • Pangenome Comparison Analysis
  • Reporting Issues and Suggesting Features ๐Ÿ’ฌ

Biological system Prediction:

  • Gene Family annotation
  • System Detection Based on Models
  • Systems analysis output ๐Ÿ“Š
    • System Projection on Genomes
    • System Association with Pangenome Elements
    • System Partition Analysis

Pangenomes comparison:

  • Conserved Spots Comparison Across Pangenomes
  • Systems Comparison Across Pangenomes

PANORAMA utilities:

  • Extract and Visualize Pangenome Information โ„น๏ธ
  • Gene Family Alignment Across Pangenomes
  • Gene Family Clustering Across Pangenomes

Indices

  • General Index
  • Python Module Index
  • User Documentation
  • Systems analysis output ๐Ÿ“Š

Systems analysis output ๐Ÿ“Š#

  • System Projection on Genomes
    • Projection Workflow
    • Projection command Line Usage
    • Advanced Options
    • Projection command Line Arguments
    • Projection Output Files
    • 1. Pangenome Systems Summary (systems.tsv)
    • 2. Organism Projection Files (projection/<organism>.tsv)
  • System Association with Pangenome Elements
    • Association Workflow
    • Association Command Line Usage
    • Association command line arguments
    • Association Output Files
    • Data Interpretation
    • Technical Details
  • System Partition Analysis
    • Partition Workflow
    • Partition Command Line Usage
    • Partition command Line Arguments
    • Partition Categories
    • Partition Output Files
    • Technical Details

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System Detection Based on Models

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System Projection on Genomes

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