Manual

These pages provide a detailed introduction to EggLib’s main functions with the help of a few brief examples. For a more detailed presentation of the usage of classes and methods, please refer to the Reference manual.

• The Align and Container classes
  • Importing sequences in the fasta format
  • Exporting data
  • Iteration
  • Accessing and editing data
  • Alphabets
  • Protein translation
• Computing diversity statistics
  • The stats.ComputeStats class
  • Computing statistics
  • Structure and group labels
  • Missing data
  • Linkage disequilibrium statistics
  • Using VCF files
• Coalescent simulations
  • Coalescent parameters
  • Use of historical events
  • Performing simulations
• Integration of external software
  • Principle
  • Usage