MGLEX documentation

Welcome to the MGLEX documentation! MGLEX (MetaGenome Likelihood Extractor) is a probablistic model implementation in Python 3 to extract genomes from metagenome assemblies using various features.

Note: This documentation is a stub, it will be extended with upcoming versions of MGLEX.

Contents

• Installing MGLEX
  • Dependencies
  • Installation
• Quickstart guide
  • Feature files
  • Contig assignment matrices
  • Data handling
  • MGLEX classification
  • MGLEX command line interface
  • Formatting the data
  • Building a responsibility matrix
  • Training a model
  • Classifying contigs
  • Advanced usage
• MGLEX feature files
  • Read coverage
  • Nucleotide composition
  • Taxonomic annotation
• Contact

Indices and tables

• Index
• Module Index
• Search Page