oggmap

Documentation

  • Installation
  • Authors and citations
  • Contact
  • License
  • References

Tutorials

  • Tutorials
  • Getting started
  • Pre-calculated orthomaps
  • oggmap - Steps
  • oggmap - Downstream analysis
  • Case studies
  • Command line functions
  • myTAI - Function correspondance
  • Prerequisites
  • Code and data availability
    • Step 4 - TEI calculation
    • Command line functions
      • Command line function - cds2aa
      • Command line function - eggnog2orthomap
      • Command line function - gtf2t2g
      • Command line function - ncbitax
      • Command line function - of2orthomap
      • Command line function - orthomcl2orthomap
      • Command line function - plaza2orthomap
      • Command line function - qlin
    • Step 4 - other evolutionary indices
    • frog embryogenesis - case study
    • Step 3 - map gene/transcript IDs
    • Step 2 - gene age class assignment
    • hydra - case study
    • mouse - case study
    • Correspondance of myTAI and oggmap functions
    • nematode embryogenesis - case study
    • Step 0 - run OrthoFinder
    • hematopoiesis - case study
    • plotting results
    • partial TEI values
    • Step 1 - get taxonomic information
    • relative expression
    • zebrafish embryogenesis - case study

API

  • API
  • Indices
  • Changelog
oggmap
  • Tutorials
  • Command line functions
  • View page source

Command line functions

  • Command line function - cds2aa
  • Command line function - eggnog2orthomap
  • Command line function - gtf2t2g
  • Command line function - ncbitax
  • Command line function - of2orthomap
  • Command line function - orthomcl2orthomap
  • Command line function - plaza2orthomap
  • Command line function - qlin
Previous Next

© Copyright 2025, Max Planck Society for the Advancement of Science.

Built with Sphinx using a theme provided by Read the Docs.