51 lines
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3.5 KiB
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51 lines
No EOL
3.5 KiB
HTML
<!DOCTYPE HTML>
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<title>Cdd</title>
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<h3>Cdd</h3><pre>Defined in file <a href="cdd.asn.html">cdd.asn</a>
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C++ class: <a href="../doxyhtml/classCCdd.html">CCdd</a>
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Cdd ::= SEQUENCE {
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name VisibleString, -- a short name (can be the accession..)
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id <a href="Cdd-id-set.html">Cdd-id-set</a>, -- this CD's Ids
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description <a href="Cdd-descr-set.html">Cdd-descr-set</a> OPTIONAL, -- status, references, etc.
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seqannot SEQUENCE OF <a href="Seq-annot.html">Seq-annot</a> OPTIONAL, -- contains the CD alignment
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features <a href="Biostruc-annot-set.html">Biostruc-annot-set</a> OPTIONAL, -- contains structure
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-- alignment data
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-- or "core" definitions
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sequences <a href="Seq-entry.html">Seq-entry</a> OPTIONAL, -- store as bioseq-set inside seq-entry
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profile-range <a href="Seq-interval.html">Seq-interval</a> OPTIONAL, -- profile for this region only
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-- also stores the <a href="Seq-id.html">Seq-id</a> of the master
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trunc-master <a href="Bioseq.html">Bioseq</a> OPTIONAL, -- holds the truncated master, which
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-- may be something like a consensus,
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-- uses the same sequence coordinate
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-- frame as the profile-range
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posfreq <a href="Matrix.html">Matrix</a> OPTIONAL, -- relative residue frequencies
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scoremat <a href="Matrix.html">Matrix</a> OPTIONAL, -- Position dependent score matrix
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distance <a href="Triangle.html">Triangle</a> OPTIONAL, -- pairwise distances for all seqs.
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parent <a href="Cdd-id.html">Cdd-id</a> OPTIONAL, -- this CD is the result of a split
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children <a href="Cdd-id-set.html">Cdd-id-set</a> OPTIONAL, -- this CD has been split, not used
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siblings <a href="Cdd-id-set.html">Cdd-id-set</a> OPTIONAL, -- related CDs (common hits), clusters
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neighbors <a href="Cdd-id-set.html">Cdd-id-set</a> OPTIONAL, -- co-occurring CDs, not used
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pending SEQUENCE OF <a href="Update-align.html">Update-align</a> OPTIONAL, -- contains alignments from
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-- update or "lower panel"
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rejects SEQUENCE OF <a href="Reject-id.html">Reject-id</a> OPTIONAL, -- SeqIds of rejected CD-
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-- members, ignore in update
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master3d SET OF <a href="Seq-id.html">Seq-id</a> OPTIONAL, -- record if CD has a 3D representative
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alignannot <a href="Align-annot-set.html">Align-annot-set</a> OPTIONAL, -- alignment annotation
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style-dictionary <a href="Cn3d-style-dictionary.html">Cn3d-style-dictionary</a> OPTIONAL, -- record rendering styles
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user-annotations <a href="Cn3d-user-annotations.html">Cn3d-user-annotations</a> OPTIONAL, -- user annotations in Cn3D
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ancestors SEQUENCE OF <a href="Domain-parent.html">Domain-parent</a> OPTIONAL, -- list of parents
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scoreparams <a href="PssmWithParameters.html">PssmWithParameters</a> OPTIONAL,
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seqtree <a href="Sequence-tree.html">Sequence-tree</a> OPTIONAL
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}</pre>
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