Package Bio :: Package Emboss :: Module Primer
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Module Primer

source code

Code to interact with Primer-related programs from EMBOSS (DEPRECATED).

Bio.Emboss.Primer has been deprecated, please use Bio.Emboss.Primer3 or
Bio.Emboss.PrimerSearch instead.

To parse primersearch output into a PrimerSearch.OutputRecord, use
    from Bio.Emboss import PrimerSearch
    handle = open('myprimersearchoutputfile.txt')
    record = PrimerSearch.read(handle)

To parse primer3 output into a Primer3.Record, use
    from Bio.Emboss import Primer3
    handle = open('myprimer3outputfile.txt')
    record = Primer3.read(handle)

Classes [hide private]
  PrimerSearchInputRecord
Represent the input file into the primersearch program.
  PrimerSearchParser
Parse primersearch output into a PrimerSearchOutputRecord.
  PrimerSearchOutputRecord
Represent the information from a primersearch job.
  PrimerSearchAmplifier
Represent a single amplification from a primer.
  _PrimerSearchRecordConsumer
Get output from primersearch into a PrimerSearchOutputRecord
  _PrimerSearchScanner
Scan output from the primersearch program.
  Primer3Record
Represent information from a primer3 run finding primers.
  Primer3Primers
A primer set designed by Primer3.
  Primer3Parser
Parse primer3 output into a Primer3Record.
  _Primer3RecordConsumer
Get output from prime3 into a Primer3Record
  _Primer3Scanner
Scan output from the primer3 program.
Functions [hide private]
 
_strip_and_combine(line_list)
Combine multiple lines of content separated by spaces.
source code
Variables [hide private]
  __warningregistry__ = {('Bio.Emboss.Primer has been deprecated...
Variables Details [hide private]

__warningregistry__

Value:
{('''Bio.Emboss.Primer has been deprecated.
Please use Bio.Emboss.Primer3 or Bio.Emboss.PrimerSearch instead.

To parse primersearch output into a PrimerSearch.OutputRecord, use
    from Bio.Emboss import PrimerSearch
    handle = open(\'myprimersearchoutputfile.txt\')
    record = PrimerSearch.read(handle)

...