BIOM Documentation

These pages provide format specifications and API information for the BIOM table objects.

• The biom file format
  • The biom file format: Version 1.0
  • The biom file format: Version 2.0
  • The biom file format: Version 2.1
• Tips and FAQs regarding the BIOM file format
  • Motivation for the BIOM format
  • File extension
• Quick start
  • Functions
  • Examples
• BIOM Table (biom.table)
  • Classes
  • Examples
• Converting between file formats
  • General usage examples
  • Special case usage examples
• Adding sample and observation metadata to biom files
  • Adding metadata
  • Processing metadata while adding
  • Renaming (or naming) metadata columns while adding
• Summarizing BIOM tables
  • Summarizing sample data
  • Summarizing sample data qualitatively