64 lines
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2.5 KiB
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64 lines
No EOL
2.5 KiB
HTML
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<h3>PssmIntermediateData</h3><pre>Defined in file <a href="scoremat.asn.html">scoremat.asn</a>
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C++ class: <a href="../doxyhtml/classCPssmIntermediateData.html">CPssmIntermediateData</a>
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PssmIntermediateData ::= SEQUENCE {
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-- observed residue frequencies (or counts) per position of the PSSM
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-- (prior to application of pseudocounts)
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resFreqsPerPos SEQUENCE OF INTEGER OPTIONAL,
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-- Weighted observed residue frequencies per position of the PSSM.
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-- (N.B.: each position's weights should add up to 1.0).
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-- This field corresponds to f_i (f sub i) in equation 2 of
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-- Nucleic Acids Res. 2001 Jul 15;29(14):2994-3005.
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-- NOTE: this is needed for diagnostics information only (i.e.:
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-- -out_ascii_pssm option in psiblast)
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weightedResFreqsPerPos SEQUENCE OF REAL OPTIONAL,
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-- PSSM's frequency ratios
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freqRatios SEQUENCE OF REAL,
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-- Information content per position of the PSSM
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-- NOTE: this is needed for diagnostics information only (i.e.:
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-- -out_ascii_pssm option in psiblast)
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informationContent SEQUENCE OF REAL OPTIONAL,
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-- Relative weight for columns of the PSSM without gaps to pseudocounts
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-- NOTE: this is needed for diagnostics information only (i.e.:
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-- -out_ascii_pssm option in psiblast)
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gaplessColumnWeights SEQUENCE OF REAL OPTIONAL,
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-- Used in sequence weights computation
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-- NOTE: this is needed for diagnostics information only (i.e.:
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-- -out_ascii_pssm option in psiblast)
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sigma SEQUENCE OF REAL OPTIONAL,
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-- Length of the aligned regions per position of the query sequence
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-- NOTE: this is needed for diagnostics information only (i.e.:
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-- -out_ascii_pssm option in psiblast)
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intervalSizes SEQUENCE OF INTEGER OPTIONAL,
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-- Number of matching sequences per position of the PSSM (including the
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-- query)
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-- NOTE: this is needed for diagnostics information only (i.e.:
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-- -out_ascii_pssm option in psiblast)
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numMatchingSeqs SEQUENCE OF INTEGER OPTIONAL,
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-- Number of independent observations per position of the PSSM
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-- NOTE: this is needed for building CDD database for DELTA-BLAST
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numIndeptObsr SEQUENCE OF REAL OPTIONAL
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}</pre>
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