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Table of contents

  • Biopython Tutorial & Cookbook
    • Introduction
    • Quick Start – What can you do with Biopython?
    • Sequence objects
    • Sequence annotation objects
    • Sequence Input/Output
    • Sequence alignments
    • Pairwise sequence alignment
    • Multiple Sequence Alignment objects
    • Pairwise alignments using pairwise2
    • BLAST (new)
    • BLAST (old)
    • BLAST and other sequence search tools
    • Accessing NCBI’s Entrez databases
    • Swiss-Prot and ExPASy
    • Going 3D: The PDB module
    • Bio.PopGen: Population genetics
    • Phylogenetics with Bio.Phylo
    • Sequence motif analysis using Bio.motifs
    • Cluster analysis
    • Graphics including GenomeDiagram
    • KEGG
    • Bio.phenotype: analyze phenotypic data
    • Cookbook – Cool things to do with it
    • The Biopython testing framework
    • Where to go from here – contributing to Biopython
    • Appendix: Useful stuff about Python
    • Bibliography
  • API documentation
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Biopython Tutorial & Cookbook

Named authors: Jeff Chang, Brad Chapman, Iddo Friedberg, Thomas Hamelryck, Michiel de Hoon, Peter Cock, Tiago Antao, Eric Talevich, Bartek Wilczyński.

This is from Biopython 1.85.

Table of contents:

  • Introduction
  • Quick Start – What can you do with Biopython?
  • Sequence objects
  • Sequence annotation objects
  • Sequence Input/Output
  • Sequence alignments
  • Pairwise sequence alignment
  • Multiple Sequence Alignment objects
  • Pairwise alignments using pairwise2
  • BLAST (new)
  • BLAST (old)
  • BLAST and other sequence search tools
  • Accessing NCBI’s Entrez databases
  • Swiss-Prot and ExPASy
  • Going 3D: The PDB module
  • Bio.PopGen: Population genetics
  • Phylogenetics with Bio.Phylo
  • Sequence motif analysis using Bio.motifs
  • Cluster analysis
  • Graphics including GenomeDiagram
  • KEGG
  • Bio.phenotype: analyze phenotypic data
  • Cookbook – Cool things to do with it
  • The Biopython testing framework
  • Where to go from here – contributing to Biopython
  • Appendix: Useful stuff about Python
  • Bibliography
Previous Next

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