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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.
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Record Holds information from a SwissProt record. |
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Reference Holds information from 1 references in a SwissProt entry. |
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Iterator Returns one record at a time from a SwissProt file. |
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Dictionary Accesses a SwissProt file using a dictionary interface. |
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RecordParser Parses SwissProt data into a Record object. |
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SequenceParser Parses SwissProt data into a standard SeqRecord object. |
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_Scanner Scans SwissProt-formatted data. |
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_RecordConsumer Consumer that converts a SwissProt record to a Record object. |
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_SequenceConsumer Consumer that converts a SwissProt record to a SeqRecord object. |
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_CHOMP =
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xml_support = 1
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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. |
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