fasta module provides functions to read and write sequences in fasta
format.
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parseFastaDescription(ds,
tagparser=re.compile(r'( [ a- zA- Z] \w* ) * = * ( [^ ;] + ) ;')) |
source code
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fastaParser(seq,
bioseqfactory,
tagparser=re.compile(r'( [ a- zA- Z] \w* ) * = * ( [^ ;] + ) ;'),
joinseq=<function _fastaJoinSeq at 0x11826b0>)
Parse a fasta record. |
source code
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fastaNucParser(seq,
tagparser=re.compile(r'( [ a- zA- Z] \w* ) * = * ( [^ ;] + ) ;'),
joinseq=<function _fastaJoinSeq at 0x11826b0>) |
source code
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fastaAAParser(seq,
tagparser=re.compile(r'( [ a- zA- Z] \w* ) * = * ( [^ ;] + ) ;'),
joinseq=<function _fastaJoinSeq at 0x11826b0>) |
source code
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fastaIterator(file,
bioseqfactory=<function bioSeqGenerator at 0x10b1030>,
tagparser=re.compile(r'( [ a- zA- Z] \w* ) * = * ( [^ ;] + ) ;'),
joinseq=<function _fastaJoinSeq at 0x11826b0>)
iterate through a fasta file sequence by sequence. |
source code
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fastaNucIterator(file,
tagparser=re.compile(r'( [ a- zA- Z] \w* ) * = * ( [^ ;] + ) ;'))
iterate through a fasta file sequence by sequence. |
source code
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fastaAAIterator(file,
tagparser=re.compile(r'( [ a- zA- Z] \w* ) * = * ( [^ ;] + ) ;'))
iterate through a fasta file sequence by sequence. |
source code
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str
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formatFasta(data,
gbmode=False)
Convert a seqence or a set of sequences in a string following the
fasta format |
source code
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