Package Bio :: Package Emboss :: Module Applications
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Module Applications

source code

Code to interact with and run various EMBOSS programs.

These classes follow the AbstractCommandline interfaces for running programs.

Classes [hide private]
  _EmbossMinimalCommandLine
Base Commandline object for EMBOSS wrappers (PRIVATE).
  _EmbossCommandLine
Base Commandline object for EMBOSS wrappers (PRIVATE).
  Primer3Commandline
Commandline object for the Primer3 interface from EMBOSS.
  PrimerSearchCommandline
Commandline object for the primersearch program from EMBOSS.
  FDNADistCommandline
Commandline object for the fdnadist program from EMBOSS.
  FTreeDistCommandline
Commandline object for the ftreedist program from EMBOSS.
  FNeighborCommandline
Commandline object for the fneighbor program from EMBOSS.
  FSeqBootCommandline
Commandline object for the fseqboot program from EMBOSS.
  FDNAParsCommandline
Commandline object for the fdnapars program from EMBOSS.
  FProtParsCommandline
Commandline object for the fdnapars program from EMBOSS.
  FProtDistCommandline
Commandline object for the fprotdist program from EMBOSS.
  FConsenseCommandline
Commandline object for the fconsense program from EMBOSS.
  WaterCommandline
Commandline object for the water program from EMBOSS.
  NeedleCommandline
Commandline object for the needle program from EMBOSS.
  NeedleallCommandline
Commandline object for the needleall program from EMBOSS.
  StretcherCommandline
Commandline object for the stretcher program from EMBOSS.
  FuzznucCommandline
Commandline object for the fuzznuc program from EMBOSS.
  Est2GenomeCommandline
Commandline object for the est2genome program from EMBOSS.
  ETandemCommandline
Commandline object for the etandem program from EMBOSS.
  EInvertedCommandline
Commandline object for the einverted program from EMBOSS.
  PalindromeCommandline
Commandline object for the palindrome program from EMBOSS.
  TranalignCommandline
Commandline object for the tranalign program from EMBOSS.
  DiffseqCommandline
Commandline object for the diffseq program from EMBOSS.
  IepCommandline
Commandline for EMBOSS iep: calculated isoelectric point and charge.
  SeqretCommandline
Commandline object for the seqret program from EMBOSS.
  SeqmatchallCommandline
Commandline object for the seqmatchall program from EMBOSS
Functions [hide private]
 
_test()
Run the Bio.Emboss.Applications module doctests.
source code
Variables [hide private]
  __package__ = 'Bio.Emboss'