| Trees | Indices | Help |
|---|
|
|
This module provides code to work with the sprotXX.dat file from Utilities for working with FASTA-formatted sequences (OBSOLETE). http://www.expasy.ch/sprot/sprot-top.html
Please see Bio.SwissProt for alternatives for the functionality in this module.
Tested with: Release 37, Release 38, Release 39
Limited testing with: Release 51, 54
Classes: Record Holds SwissProt data. Reference Holds reference data from a SwissProt entry. Iterator Iterates over entries in a SwissProt file. Dictionary Accesses a SwissProt file using a dictionary interface. RecordParser Parses a SwissProt record into a Record object. SequenceParser Parses a SwissProt record into a SeqRecord object.
_Scanner Scans SwissProt-formatted data. _RecordConsumer Consumes SwissProt data to a SProt.Record object. _SequenceConsumer Consumes SwissProt data to a SeqRecord object.
Functions: index_file Index a SwissProt file for a Dictionary.
|
|||
|
Record Holds information from a SwissProt record. |
|||
|
Reference Holds information from 1 references in a SwissProt entry. |
|||
|
Iterator Returns one record at a time from a SwissProt file. |
|||
|
Dictionary Accesses a SwissProt file using a dictionary interface. |
|||
|
RecordParser Parses SwissProt data into a Record object. |
|||
|
SequenceParser Parses SwissProt data into a standard SeqRecord object. |
|||
|
_Scanner Scans SwissProt-formatted data. |
|||
|
_RecordConsumer Consumer that converts a SwissProt record to a Record object. |
|||
|
_SequenceConsumer Consumer that converts a SwissProt record to a SeqRecord object. |
|||
|
|||
|
|||
|
|||
|
|||
|
|||
_CHOMP =
|
|||
xml_support = 1
|
|||
|
|||
Index a SwissProt file. filename is the name of the file. indexname is the name of the dictionary. rec2key is an optional callback that takes a Record and generates a unique key (e.g. the accession number) for the record. If not specified, the entry name will be used. |
| Trees | Indices | Help |
|---|
| Generated by Epydoc 3.0.1 on Sun May 3 17:14:13 2009 | http://epydoc.sourceforge.net |