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56 lines
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2 KiB
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<title>Pssm</title>
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<h3>Pssm</h3><pre>Defined in file <a href="scoremat.asn.html">scoremat.asn</a>
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C++ class: <a href="../doxyhtml/classCPssm.html">CPssm</a>
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Pssm ::= SEQUENCE {
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-- Is the this a protein or nucleotide scoring matrix?
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isProtein BOOLEAN DEFAULT TRUE,
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-- PSSM identifier
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identifier <a href="Object-id.html">Object-id</a> OPTIONAL,
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-- The dimensions of the matrix are returned so the client can
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-- verify that all data was received.
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numRows INTEGER, -- number of rows
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numColumns INTEGER, -- number of columns
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-- row-labels is given to note the order of residue types so that it can
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-- be cross-checked between applications.
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-- If this field is not given, the matrix values are presented in
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-- order of the alphabet ncbistdaa is used for protein, ncbi4na for nucl.
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-- for proteins the values returned correspond to
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-- (-,-), (-,A), (-,B), (-,C) ... (A,-), (A,A), (A,B), (A,C) ...
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rowLabels SEQUENCE OF VisibleString OPTIONAL,
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-- are matrices stored row by row?
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byRow BOOLEAN DEFAULT FALSE,
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-- PSSM representative sequence (master)
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query <a href="Seq-entry.html">Seq-entry</a> OPTIONAL,
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-- both intermediateData and finalData can be provided, but at least one of
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-- them must be provided.
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-- N.B.: by default PSI-BLAST will return the PSSM in its <a href="PssmIntermediateData.html">PssmIntermediateData</a>
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-- representation.
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-- Intermediate or final data for the PSSM
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intermediateData <a href="PssmIntermediateData.html">PssmIntermediateData</a> OPTIONAL,
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-- Final representation for the PSSM
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finalData <a href="PssmFinalData.html">PssmFinalData</a> OPTIONAL
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}</pre>
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