Bio.Sequencing package

Submodules

• Bio.Sequencing.Ace module
  • rd
    • rd.__init__()
    • rd.__firstlineno__
    • rd.__static_attributes__
  • qa
    • qa.__init__()
    • qa.__firstlineno__
    • qa.__static_attributes__
  • ds
    • ds.__init__()
    • ds.__firstlineno__
    • ds.__static_attributes__
  • af
    • af.__init__()
    • af.__firstlineno__
    • af.__static_attributes__
  • bs
    • bs.__init__()
    • bs.__firstlineno__
    • bs.__static_attributes__
  • rt
    • rt.__init__()
    • rt.__firstlineno__
    • rt.__static_attributes__
  • ct
    • ct.__init__()
    • ct.__firstlineno__
    • ct.__static_attributes__
  • wa
    • wa.__init__()
    • wa.__firstlineno__
    • wa.__static_attributes__
  • wr
    • wr.__init__()
    • wr.__firstlineno__
    • wr.__static_attributes__
  • Reads
    • Reads.__firstlineno__
    • Reads.__init__()
    • Reads.__static_attributes__
  • Contig
    • Contig.__firstlineno__
    • Contig.__static_attributes__
    • Contig.__init__()
  • parse()
  • ACEFileRecord
    • ACEFileRecord.__firstlineno__
    • ACEFileRecord.__static_attributes__
    • ACEFileRecord.__init__()
    • ACEFileRecord.sort()
  • read()
• Bio.Sequencing.Phd module
  • Record
    • Record.__init__()
    • Record.__firstlineno__
    • Record.__static_attributes__
  • read()
  • parse()

Module contents

Code to deal with various programs for sequencing and assembly.

This code deals with programs such as Phred, Phrap and Consed – which provide utilities for calling bases from sequencing reads, and assembling sequences into contigs.