55 lines
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55 lines
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2 KiB
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<h3>PssmFinalData</h3><pre>Defined in file <a href="scoremat.asn.html">scoremat.asn</a>
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C++ class: <a href="../doxyhtml/classCPssmFinalData.html">CPssmFinalData</a>
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PssmFinalData ::= SEQUENCE {
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-- PSSM's scores
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scores SEQUENCE OF INTEGER,
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-- Karlin & Altschul parameter produced during the PSSM's calculation
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lambda REAL,
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-- Karlin & Altschul parameter produced during the PSSM's calculation
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kappa REAL,
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-- Karlin & Altschul parameter produced during the PSSM's calculation
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h REAL,
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-- scaling factor used to obtain more precision when building the PSSM.
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-- (i.e.: scores are scaled by this value). By default, PSI-BLAST's PSSM
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-- engine generates PSSMs which are not scaled-up, however, if PSI-BLAST is
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-- given a PSSM which contains a scaled-up PSSM (indicated by having a
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-- scalingFactor greater than 1), then it will scale down the PSSM to
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-- perform the initial stages of the search with it.
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-- N.B.: When building RPS-BLAST databases, if formatrpsdb is provided
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-- scaled-up PSSMs, it will ensure that all PSSMs used to build the
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-- RPS-BLAST database are scaled by the same factor (otherwise, RPS-BLAST
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-- will silently produce incorrect results).
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scalingFactor INTEGER DEFAULT 1,
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-- Karlin & Altschul parameter produced during the PSSM's calculation
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lambdaUngapped REAL OPTIONAL,
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-- Karlin & Altschul parameter produced during the PSSM's calculation
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kappaUngapped REAL OPTIONAL,
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-- Karlin & Altschul parameter produced during the PSSM's calculation
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hUngapped REAL OPTIONAL,
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-- Word score threshold
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wordScoreThreshold REAL OPTIONAL
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}</pre>
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