PssmIntermediateData
Defined in file scoremat.asn
C++ class: CPssmIntermediateData
PssmIntermediateData ::= SEQUENCE {
-- observed residue frequencies (or counts) per position of the PSSM
-- (prior to application of pseudocounts)
resFreqsPerPos SEQUENCE OF INTEGER OPTIONAL,
-- Weighted observed residue frequencies per position of the PSSM.
-- (N.B.: each position's weights should add up to 1.0).
-- This field corresponds to f_i (f sub i) in equation 2 of
-- Nucleic Acids Res. 2001 Jul 15;29(14):2994-3005.
-- NOTE: this is needed for diagnostics information only (i.e.:
-- -out_ascii_pssm option in psiblast)
weightedResFreqsPerPos SEQUENCE OF REAL OPTIONAL,
-- PSSM's frequency ratios
freqRatios SEQUENCE OF REAL,
-- Information content per position of the PSSM
-- NOTE: this is needed for diagnostics information only (i.e.:
-- -out_ascii_pssm option in psiblast)
informationContent SEQUENCE OF REAL OPTIONAL,
-- Relative weight for columns of the PSSM without gaps to pseudocounts
-- NOTE: this is needed for diagnostics information only (i.e.:
-- -out_ascii_pssm option in psiblast)
gaplessColumnWeights SEQUENCE OF REAL OPTIONAL,
-- Used in sequence weights computation
-- NOTE: this is needed for diagnostics information only (i.e.:
-- -out_ascii_pssm option in psiblast)
sigma SEQUENCE OF REAL OPTIONAL,
-- Length of the aligned regions per position of the query sequence
-- NOTE: this is needed for diagnostics information only (i.e.:
-- -out_ascii_pssm option in psiblast)
intervalSizes SEQUENCE OF INTEGER OPTIONAL,
-- Number of matching sequences per position of the PSSM (including the
-- query)
-- NOTE: this is needed for diagnostics information only (i.e.:
-- -out_ascii_pssm option in psiblast)
numMatchingSeqs SEQUENCE OF INTEGER OPTIONAL,
-- Number of independent observations per position of the PSSM
-- NOTE: this is needed for building CDD database for DELTA-BLAST
numIndeptObsr SEQUENCE OF REAL OPTIONAL
}