Wiki Documentation

In addition to the main documentation which is all tracked under the main repository, we have several legacy pages which were originally contributed as wiki pages. We would like to retire these, porting still relevant content to the main documentation:

• The module for multiple sequence alignments, AlignIO
• History and replacement of Bio.Alphabet
• 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.