Wiki Documentation

Main sources of documentation:

• The Biopython Tutorial and Cookbook (PDF) contains the main bulk of the Biopython documentation. It provides information to get you started with Biopython, in addition to specific documentation on a number of modules.

• You can view the Biopython’s built-in API documentation online (created with Epydoc), or from within Python using the help function.

• Cookbook documentation (on the wiki)

• Peter’s Biopython Workshop for Python Novices, focussed on working with sequence files.

In addition, this wiki contains some information on a few of the core functions of Biopython, all of those pages are included in this category:

• The module for multiple sequence alignments, AlignIO
• Managing local biological databases with the BioSQL module.
• Parsing GFF Files
• Interfacing with "Phylogenetic Analysis by Maximum Likelihood" (PAML) package.
• Phylo - Working with Phylogenetic Trees
• Population Genetics in Biopython
• Introduction to SearchIO
• Handling sequences with the Seq class.
• Introduction to SeqIO
• Introduction to the SeqRecord class.