Using bioconductor from Python

Contents:

• Introduction
  • Installing bioconductor packages
  • Module structures
• biobase: base structures and functions for Bioconductor
• annotationdbi: base structures and functions for annotations
• geoquery: querying the GEO database
  • Example
  • Docstrings
• iranges: base structures and functions not unlike memoryviews
• biostrings: handling genomic information as strings
• bsgenome: strings information for a complete genome
  • Examples
  • Docstrings
• gseabase: infrastructure for gene-set associations
• shortread: handle short reads
  • Examples
  • Docstrings
• ggbase: infrastructure for the genetics of gene expression
• ggtools: software and data for genetical genomics
• Case study: Analysis of the C. elegans genome

Indices and tables

• Index
• Module Index
• Search Page