QIIME File Formats

These pages document various aspects of QIIME, including scripts, file formats, and parameters files. If you’re instead looking for tutorials to guide you through different types of analyses, you should refer to the QIIME tutorials.

• QIIME Scripts
  • QIIME script index
  • Scripts in related packages
  • biom-format scripts
  • emperor scripts
  • PICRUSt scripts
• Input Files
  • General suggestions for formatting your files
  • Metadata mapping files
  • Demultiplexed sequences
  • BIOM table (e.g., OTU table)
  • ID-to-taxonomy map
  • QIIME parameters
  • Sample id map
• QIIME parameters files
  • Motivation
  • Format
  • Examples
  • Workflow scripts
  • Why is there no longer an example parameters file included with QIIME?