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Tool
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Overview
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NCI
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Protégé
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is
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a
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collection
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of
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Protégé
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plug-ins
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developed
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for
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the
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NCI-specific
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editing
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environment.
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Protégé
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is
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an
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open-source
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development
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environment
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for
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ontologies
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and
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knowledge
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based
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systems.
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The
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OWL
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plug-in
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extends
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the
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environment
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to
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support
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the
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Web
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Ontology
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Language
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(OWL).
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Please
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go
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to
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for
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more
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information.
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The
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NCI
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Protégé
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collection
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of
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plug-ins
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is
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used
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to
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edit
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the
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NCI
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Thesaurus.
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NCI
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Protégé
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provides
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a
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customized
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OWL
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editing
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environment,
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including
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additional
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editing
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and
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querying
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capabilities
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that
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are
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not
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available
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in
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the
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Protégé
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OWL
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plug-in.
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The
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NCI-specific
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plug-ins
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have
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been
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implemented
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as
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a
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tabbed
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interface. Beginning with NCI Protégé 1.3.0. this tool allows imports of ontologies in database mode and enables collaborators to begin "federating" ontologies.
NCI Protégé runs in a client-server environment. Current editors will want to download the client only. Others may wish to download for review or download and install the entire client-server package. Links to both are provided in the tool downloads.
What's New
The final version of NCI Protégé (1.4.3)
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to
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be
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built
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on
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the
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Protégé
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3.4
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code
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base
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from
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Stanford
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has
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been
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released.
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The
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status
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of
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NCI
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Protégé
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is
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now
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maintenance
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mode.
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Only
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major
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bugs
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that
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appear
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in
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production
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will
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be
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fixed.
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Future
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versions
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of
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NCI
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Protégé
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are
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being
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considered
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for
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the
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Protege
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4
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code
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base.
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Features
The EVS Protégé distribution includes the NCIEditTab Protégé plug-in
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editing
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client
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(and
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other
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plug-ins),
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a
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highly
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concurrent
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Protégé
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server
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(modified
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from
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the
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base
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Stanford
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distribution),
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and
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an
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Explanation
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server
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that
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includes
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the
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Pellet
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reasoner.
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Client
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Environment
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The
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client
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environment
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includes:
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- NCIEditTab
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- plug-in,
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- supporting
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- basic
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- editing
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- functionality
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- as
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- well
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- as
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- complex
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- edits
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- (merge,
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- split,
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- retirement,
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- and
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- cloning),
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- batch
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- jobs,
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- report
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- writing,
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- and
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- tree-like
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- views
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- of
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- graphs
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- built
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- along
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- transitive
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- relationships
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- (e.g.
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- part_of).
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- It
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- supports
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- XMLLiterals
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- for
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- complex
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- properties
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- as
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- per
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- configuration,
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- and
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- tracks
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- editing
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- history
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- independently
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- of
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- the
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- change
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- ontology,
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- which
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- is
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- used
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- in
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- support
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- of
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- Prompt.
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- LuceneQuery
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- tab
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- plug-in,
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- supporting
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- a
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- variety
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- of
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- search
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- modes
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- (including
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- negation)
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- on
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- annotations
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- and
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- restrictions
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- as
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- well
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- as
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- indexed
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- Lucene
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- "match"
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- and
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- "sounds
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- like"
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- searching,
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- plus
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- reporting
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- support
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- for
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- the
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- result
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- sets.
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- Explanation
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- tab
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- plug-in,
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- providing
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- a
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- description
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- logic
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- entailment-explanation
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- facility
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- integrated
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- with
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- an
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- incremental
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- classifier;
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- classification
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- results
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- are
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- available
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- to
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- all
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- the
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- clients
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- in
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- the
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- client-server
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- environment.
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- Workflow
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- tab
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- plug-in,
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- supporting
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- basic
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- workflow/assignment
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- functionality,
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- and
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- communications
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- to
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- Semantic
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- Media
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- Wiki
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- if
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- set
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- up
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- for
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- collaborative development.
Roadmap
| Wiki Markup |
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{multi-excerpt-include:pageTitle=NCI Protege Release Roadmap|name=NCIProtegeReleasestoPresentSummarized|nopanel=true} |
At A Glance Details
- Version Number and Release Date: 1.4.3, February, 2011 (NCI Protégé 1.4 requires Protégé 3)
- caBIG® Tool Bundle: No related bundle
- Grid Enabled? Supporting tool
- Compatibility Level: Supporting tool
- Installation Level: Intermediate - technical assistance may be required, download may require supporting infrastructure or software
- System Requirements: Protégé runs on platforms that support JDK version 1.4. This includes all modern versions of MS Windows (NT/2000/XP), the common versions of Unix including Linux, Solaris, AIX, and HP-UX, and Mac OS X.
NCI Protégé Presentations
| Wiki Markup |
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{multi-excerpt-include:pageTitle=NCI Protege Presentations|name=NCIProtegePresentations|nopanel=true} |
NCI Protégé Documentation
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{multi-excerpt-include:pageTitle=NCI Protege Documentation|name=NCIProtegeDocumentation|nopanel=true} |
Installation and Downloads
The distribution package can be found on the GForge archive page.
The package contains the following (this may vary slightly for different versions):
- The installation folders for the client, Explanation server and Protégé server.
- A metaproject which contains accounts for editor and administrator by default.
- Test BiomedGT and NCIThesaurus OWL files to load.
- An import-repository folder containing OWL files to set up a local ontology repository.
- A ReadMe file with instructions on how to configure all the necessary scripts from scratch.
When you install a new release, you must configure a new database project, following the instructions on Protege Software Updates and Configuring New Database Project. These instructions reflect the NCI EVS server environment (directory structures, filenames, server hostnames, etc). It is not required, but it is probably easiest, to set up the same directories in a new environment.
| Info | ||
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If you are an NCI editor, you will only need to download the appropriate client, from the list on the downloads page on the GForge archive page. |
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NCI Protégé Forum and Support
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development. h2. At-a-glance Specifications * NCI Protégé 1.4 requires Protégé 3. * Installation Level: Intermediate h2. Installation and Downloads The distribution package can be found [on GForge|http://gforge.nci.nih.gov/frs/?group_id=174 NCI Protégé Public Release Package]. The package contains the following (this may vary slightly for different versions): * The installation folders for the client, explanation and Protégé server. * A metaproject which contains accounts for test editor and test administrator by default. * Test BiomedGT and NCIThesaurus OWL files to load. * An import-repository folder containing OWL files to set up a local ontology repository. * A ReadMe file with instructions on how to configure all the necessary scripts from scratch. {Include:VKC:Code Download Disclaimer to Include} h2. NCI Protégé Documentation {multi-excerpt-include:pageTitle=NCI Protege Documentation|name=NCIProtegeDocumentation|nopanel=true} h2. NCI Protégé Presentations {multi-excerpt-include:pageTitle=NCI Protege Presentations|name=NCIProtegePresentations|nopanel=true} h2. NCI Protégé Support {multi-excerpt-include:pageTitle=NCI Protege Support Links|name=NCIProtegeSupportLinks|nopanel=true} h2. |
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