A
- accessing the API, Running Proximity applications, Overview
- accuracy, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- add link tool, Adding Links to Data with Queries
- add-supervises-links query, Adding Links to Data with Queries
- AddAttribute class, Adding a New Attribute
- addAttribute(), Adding a New Attribute
- addClusterCoeffAttribute(), Clustering coefficient
- addHubsAndAuthoritiesAttributes(), Hubs and authorities
- adding (see creating)
- aggregation functions, Relational Probability Trees, Understanding relational probability trees
- aliases for shortcuts, File and directory shortcuts
- analysis (see schema analysis)
- annotations (see numeric annotations)
- API, Using Proximity, Running Proximity applications, Overview
- applications, Running Proximity applications
-
- (see also individual applications)
- apply(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- applying models, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- area under ROC curve, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- arranging
-
- queries, A First Proximity Query
- subgraph display, Exploring Containers and Subgraphs
- attribute value conditions, A First Proximity Query
- attribute value constraints, Comparing Items in a Query
- AttributeGenerator class, Code example: generate-iid-data.py
- attributes
-
- added by sampling, Code example: sample-1d-clusters.py
- case of names and values, Importing XML Data, Importing Plain Text Data
- conditioning during data generation, Generating i.i.d. data, Code example: generate-iid-data.py
- in conditions, A First Proximity Query
- in constraints, Comparing Items in a Query
- of containers, Exporting database elements to XML, Exploring Containers and Subgraphs, Working with Proximity Tables
- creating, Exploring Attributes, Adding a New Attribute
- deleting, Exploring Attributes
- dimensionality, Exploring Attributes, Using the Location Bar
- existence of, Code example: create-isStudent-attr.py
- exploring, Exploring Attributes, Using the Location Bar
- exporting, Exporting attribute values
- exporting to CSV files, Exploring Attributes
- exporting to XML, Exporting database elements to XML
- filtering by value, Exploring Attributes, Using the Location Bar, Working with Proximity Tables, Working with Proximity Tables
- finding specified values, Code Example: Finding Selected Objects, Working with Proximity Tables
- importing, Importing database elements using XML, Importing database elements using plain text
- of links, Exploring Objects and Links, Exploring Attributes, Working with Proximity Tables
- multiple values, Exploring Objects and Links, Exploring Attributes, Working with Proximity Tables
- of objects, Exploring Objects and Links, Exploring Attributes, Working with Proximity Tables
- predicting, Code example: generate-iid-data.py, The Modeling Process in Proximity, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Understanding relational probability trees, Code example: run-1d-clusters-rdn.py
- Proximity tables for, Working with Proximity Tables
- of subgraphs, Code example: sample-1d-clusters.py, Subgraphs, Subgraph attribute specification files
- text representation, attributes.data
- type information, Analyzing the Database Schema
- XML representation, Attributes, Attributes
- AttributeSource class, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Using temporal attributes in a relational probability
tree, Code example: run-1d-clusters-rdn.py
- autocorrelation
-
- generating data with, Synthetic Data Generation
- visualizing in relational dependency networks, Viewing relational dependency networks
B
- batch files (Windows), Running Proximity applications, Running Proximity applications, Proximity Shell Scripts and Batch Files
-
- db-util.bat, Running Proximity applications, Importing databases using XML, Importing databases using plain text, Code example: generate-iid-data.py, Proximity Shell Scripts and Batch Files, Updating databases using plain text
- export-text.bat, Running Proximity applications, Exporting databases using plain text, Proximity Shell Scripts and Batch Files, Updating databases using plain text
- export-xml.bat, Running Proximity applications, Proximity Shell Scripts and Batch Files
- gui.bat, Running Proximity applications, Exploring Objects and Links, Proximity Shell Scripts and Batch Files
- import-text.bat, Running Proximity applications, Proximity Shell Scripts and Batch Files, Updating databases using plain text
- import-xml.bat, Running Proximity applications, Proximity Shell Scripts and Batch Files
- query.bat, Running Proximity applications, Executing a Query from the Command Line, Proximity Shell Scripts and Batch Files
- script.bat, Running Proximity applications, Code example: helloworld.py, Proximity Shell Scripts and Batch Files
- BATs, Working with Proximity Tables
- Bayesian classification, Relational Bayesian Classifier
- binary association tables, Working with Proximity Tables
- bounded ranges for numeric annotations, Grouping Elements in a Query
- browse(), Code Example: Finding Selected Objects, Working with Proximity Tables
- browser, The Proximity User Interface
-
- (see also Proximity Database Browser)
- graphical, Visualizing Data, Visualizing Data
- NST, Working with Proximity Tables, Working with Proximity Tables
- browsing (see exploring)
- bug reports (see technical support)
C
- case matching in Proximity, A First Proximity Query
- case of attribute names and values, Importing XML Data, Importing Plain Text Data
- changing
-
- data (see updating)
- queries (see editing)
- characters
-
- converting for MonetDB, Importing XML Data, Importing Plain Text Data, Proximity XML Format, Proximity Text Data Format
- special
-
- in container names, A First Proximity Query
- in text data representation, Importing Plain Text Data, Exporting Plain Text Data, Proximity Text Data Format
- in XML data representation, Importing XML Data, Proximity XML Format
- classes
-
- importing in scripts, Importing Proximity packages
- AddAttribute, Adding a New Attribute
- AttributeGenerator, Code example: generate-iid-data.py
- AttributeSource, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Using temporal attributes in a relational probability
tree, Code example: run-1d-clusters-rdn.py
- DataTypeEnum, Attributes, Subgraphs
- FilterFactory, Working with Proximity Tables
- ItemSource, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- LoggingListener, Code example: run-1d-clusters-rdn.py
- NormalDistribution, Code example: generate-iid-data.py
- Predictions, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- Proximity class, The prox object
- RBC, Code example: run-1d-clusters-rbc.py
- RDN, Code example: run-1d-clusters-rdn.py
- RPT, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- SyntheticGraphIID, Code example: generate-iid-data.py
- TemporalAttributeSource, Using temporal attributes in a relational probability
tree
- TemporalItemSource, Using temporal attributes in a relational probability
tree
- classification models, Overview, Relational Probability Trees
- classification trees, Relational Probability Trees
- CLASSPATH, Running Proximity applications
- clear-db (db-util option), Running Proximity applications, Proximity Shell Scripts and Batch Files
- closing the MonetDB server, Running the MonetDB database server, MonetDB Server
- clustering coefficient, Social Networking Algorithms
- collective inference, Relational Dependency Networks
- column count, Exploring Attributes
- command-line editing in interpreter, Using the Proximity Python Interpreter, Proximity Python Interpreter Commands
- comparable data types, Comparing Items in a Query, Using temporal attributes in a relational probability
tree
- comparison operators, A First Proximity Query, Comparing Items in a Query
- compiling Proximity, Running Proximity applications, Proximity Shell Scripts and Batch Files
- completion in interpreter, Using the Proximity Python Interpreter
- complex conditions, A First Proximity Query, Matching Complex Subgraphs with Subqueries
-
- in filters, Working with Proximity Tables
- computeConnectedComponents(), Connected components
- conditional log likelihood, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py
- conditioning attribute values, Generating i.i.d. data, Code example: generate-iid-data.py
- conditions, A First Proximity Query
-
- attribute value, A First Proximity Query
- complex, A First Proximity Query, Matching Complex Subgraphs with Subqueries
- existence, A First Proximity Query
- in filters, Working with Proximity Tables, Working with Proximity Tables
- connected components, Social Networking Algorithms, Generating i.i.d. data
- connecting to databases, Running the MonetDB database server
- constraint tool, Comparing Items in a Query
- constraints, Comparing Items in a Query, Comparing Items in a Query, Matching Complex Subgraphs with Subqueries, Tips and Reminders
- containers, Overview
-
- attributes of, Exporting database elements to XML, Exploring Containers and Subgraphs, Working with Proximity Tables
- deleting, Exploring Containers and Subgraphs
- exploring, Exploring Containers and Subgraphs, Exploring Containers and Subgraphs
- exporting, Exporting Data to XML, Exporting database elements to XML
- importing, Importing database elements using XML, Importing XML data using noChecks, Importing database elements using plain text
- names of, A First Proximity Query
- nested, Exporting database elements to XML, Containers
- Proximity tables for, Working with Proximity Tables
- querying, Exploring Containers and Subgraphs, Querying Containers
- root, Exporting Data to XML, Exploring Containers and Subgraphs
- sampling, Sampling the Database, Code example: sample-1d-clusters.py
- text representation, containers.data
- XML representation, Containers
- converting
-
- characters during plain text export, Exporting Plain Text Data
- characters for MonetDB, Importing XML Data, Importing Plain Text Data, Proximity XML Format, Proximity Text Data Format
- tabular data to XML, Transforming Tabular Data to XML
- cornell-out-clusters query, Querying Containers
- create-isStudent-attr.py script, Code example: create-isStudent-attr.py
- creating
-
- attributes, Exploring Attributes, Adding a New Attribute
- conditions, A First Proximity Query
- constraints, Comparing Items in a Query, Comparing Items in a Query
- edges, A First Proximity Query
- links, Adding Links to Data with Queries, Adding Links to Data with Queries
- MonetDB databases, Running the MonetDB database server, Importing databases using XML, Importing databases using plain text
- numeric annotations, Grouping Elements in a Query
- queries, A First Proximity Query, A First Proximity Query
- subqueries, Matching Complex Subgraphs with Subqueries, Matching Complex Subgraphs with Subqueries
- training and test sets, Code example: sample-1d-clusters.py
- vertices, A First Proximity Query, A First Proximity Query
- CSV files of exported data, Exploring Attributes
- customizing display of object and link names, Setting Display Preferences
D
- data
-
- exploring, Overview
- exporting, Exporting Data to XML, Exporting database elements to XML, Exporting Plain Text Data, Exporting NST data, Exploring Attributes, Working with Proximity Tables, Proximity XML Format, Proximity Text Data Format
- generating, Synthetic Data Generation, Code example: generate-iid-data.py
- importing, Importing XML Data, Transforming Tabular Data to XML, Importing Plain Text Data, Importing database elements using plain text, Proximity XML Format, Proximity Text Data Format
- relational, Introduction
- representation in Proximity, Working with Proximity Tables
- shortcut names, The prox object, Working with Proximity Tables
- text representation, Proximity Text Data Format, Subgraph attribute data files
- visualizing, Visualizing Data, Visualizing Data
- XML representation, Proximity XML Format, Subgraphs
- data type, Comparing Items in a Query, Using temporal attributes in a relational probability
tree, Proximity XML Format, Attributes, Proximity Text Data Format
- database browser (see Proximity Database Browser and graphical data browser)
- databases
-
- connecting to, Running the MonetDB database server
- creating links, Adding Links to Data with Queries, Adding Links to Data with Queries
- deleting, Deleting Proximity Databases
- exporting, Exporting databases to XML, Exporting databases using plain text, Proximity XML Format, Proximity Text Data Format
- file locations, Deleting Proximity Databases, Location of database files
- importing, Importing databases using XML, Importing databases using XML, Importing databases using plain text, Importing databases using plain text, Proximity XML Format, Proximity Text Data Format
- initializing, Importing databases using XML, Importing databases using plain text, Updating databases using plain text
- new, Running the MonetDB database server, Importing databases using XML, Importing databases using plain text
- ProxWebKB, Using the Tutorial, Setting up your environment, Importing XML Data, Exploring Objects and Links
- sampling, Sampling the Database, Code example: sample-1d-clusters.py
- schema analysis, Analyzing the Database Schema
- structure, Conventional Knowledge Discovery
- tables, Working with Proximity Tables, Working with Proximity Tables
- updating, Updating MonetDB Databases
- updating via queries, Overview, Adding Links to Data with Queries, Adding Links to Data with Queries, Tips and Reminders
- WebKB, Importing databases using XML
- DataTypeEnum class, Attributes, Subgraphs
- db-util.sh/db-util.bat, Running Proximity applications, Importing databases using XML, Importing databases using plain text, Code example: generate-iid-data.py, Proximity Shell Scripts and Batch Files, Updating databases using plain text
- defineAttribute(), Attributes
- degree disparity in generated data, Synthetic Data Generation
- deleting
-
- attributes, Exploring Attributes
- containers, Exploring Containers and Subgraphs
- databases, Deleting Proximity Databases
- Query Editor elements, A First Proximity Query
- dependency networks, Relational Dependency Networks
- describe(), Working with Proximity Tables
- different-schools query, Comparing Items in a Query
- dimensionality of attributes, Exploring Attributes, Using the Location Bar
- directed edges, A First Proximity Query
- directory shortcuts, File and directory shortcuts
- disjunctive normal form, A First Proximity Query, Matching Complex Subgraphs with Subqueries
- documentation for MonetDB, Running the MonetDB database server, Installing MonetDB
- downloading Proximity and MonetDB, Obtaining Proximity
- DTDs, DTD files
-
- graph-query.dtd, DTD files, A First Proximity Query, Exploring Containers and Subgraphs, Executing a Query from the Proximity Database Browser, Tips and Reminders, DTD Files
- prox3db.dtd, DTD files, Overview, Importing databases using XML, DTD Files, Proximity XML Format
- and query validation, A First Proximity Query
- rbc2.dtd, DTD files, DTD Files
- rdn.dtd, DTD files, Viewing relational dependency networks, DTD Files
- rpt2.dtd, DTD files, Understanding and viewing relational probability trees, Code example: run-1d-clusters-rdn.py, Viewing relational dependency networks, DTD Files
E
- edge tool, A First Proximity Query
- edges
-
- automatically annotating, Grouping Elements in a Query
- in constraints, Comparing Items in a Query
- creating, A First Proximity Query
- directed vs. undirected, A First Proximity Query
- and links, Overview
- names of, A First Proximity Query
- on subquery boundaries, Tips and Reminders
- editing
-
- command line in interpreter, Using the Proximity Python Interpreter, Proximity Python Interpreter Commands
- conditions, A First Proximity Query
- edges, A First Proximity Query
- numeric annotations, Grouping Elements in a Query
- query names and descriptions, A First Proximity Query
- vertices, A First Proximity Query
- environment, Setting up your environment
- environment variables
-
- CLASSPATH, Running Proximity applications
- PATH, Running the MonetDB database server, Running Proximity applications, MonetDB Server, Installing MonetDB, Installing Proximity
- PROX_HOME, Setting up your environment, Installing Proximity
- for Windows, Setting up your environment, Installing Proximity
- evaluating models, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- exact annotation, Grouping Elements in a Query
- executing
-
- queries, Overview, A First Proximity Query, Executing a Query from the Proximity Database Browser, Executing a Query from the Command Line
- scripts, Running Proximity Scripts
- existence conditions, A First Proximity Query
- exploring
-
- attributes, Exploring Attributes, Using the Location Bar
- containers, Exploring Containers and Subgraphs, Exploring Containers and Subgraphs
- data, Overview, Working with Proximity Tables, Working with Proximity Tables
- links, Exploring Objects and Links, Using the Location Bar
- NSTs, Working with Proximity Tables, Working with Proximity Tables
- objects, Exploring Objects and Links, Using the Location Bar
- subgraphs, Exploring Containers and Subgraphs, Exploring Containers and Subgraphs
- export-text.sh/export-text.bat, Running Proximity applications, Exporting databases using plain text, Proximity Shell Scripts and Batch Files, Updating databases using plain text
- export-xml.sh/export-xml.bat, Running Proximity applications, Exporting databases to XML, Exporting database elements to XML, Proximity Shell Scripts and Batch Files
- exporting data
-
- to CSV files, Exporting attribute values, Exploring Attributes
- from NSTs, Exporting NST data, Working with Proximity Tables
- to text, Exporting Plain Text Data, Exporting databases using plain text, Updating databases using plain text, Proximity Text Data Format
- to XML, Exporting Data to XML, Exporting database elements to XML, Proximity XML Format
- exportSpec, Exporting Data to XML
- exportType, Exporting Data to XML
F
- features, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py
- file permissions, Installing Proximity
- file shortcuts, File and directory shortcuts
- FilterFactory class, Working with Proximity Tables
- filtering, Exploring Attributes, Using the Location Bar, Working with Proximity Tables
- filters
-
- complex conditions in, Working with Proximity Tables
- conditions in, Working with Proximity Tables, Working with Proximity Tables
- general form, Working with Proximity Tables
- as method parameters, Working with Proximity Tables
- operators for, Working with Proximity Tables
- find(), Code Example: Finding Selected Objects
- finding
-
- attribute values, Code Example: Finding Selected Objects
- objects, Working with Proximity Tables
G
- generate-iid-data.py script, Code example: generate-iid-data.py
- generating synthetic data, Synthetic Data Generation, Code example: generate-iid-data.py
- getAttrNST(), Working with Proximity Tables
- getAUC(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- getConditionalLogLikelihood(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py
- getDbName(), Code example: helloworld.py
- getObjects(), Working with Proximity Tables
- getStringFromUser(), Code example: create-isStudent-attr.py
- getSubgraphAttrs(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- getYesNoFromUser(), Code example: create-isStudent-attr.py, Code example: generate-iid-data.py
- getZeroOneLoss(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- Gibbs sampling, Code example: generate-iid-data.py, Relational Dependency Networks, Code example: run-1d-clusters-rdn.py
- graph-query.dtd, DTD files, A First Proximity Query, Exploring Containers and Subgraphs, Executing a Query from the Proximity Database Browser, Tips and Reminders, DTD Files
- graphical data browser, Visualizing Data, Visualizing Data
- graphing
-
- data, Visualizing Data, Visualizing Data
- relational dependency networks, Viewing relational dependency networks, Viewing relational dependency networks
- relational probability trees, Understanding and viewing relational probability trees
- subgraphs, Exploring Containers and Subgraphs
- grouping query results, Grouping Elements in a Query
- gui.sh/gui.bat, Running Proximity applications, Exploring Objects and Links, Proximity Shell Scripts and Batch Files
I
- i.i.d. (see independent and identically distributed)
- identity constraints, Comparing Items in a Query, Matching Complex Subgraphs with Subqueries
- IDs in Proximity, Visualizing Data, Working with Proximity Tables
- import-text.sh/import-text.bat, Running Proximity applications, Importing databases using plain text, Proximity Shell Scripts and Batch Files, Updating databases using plain text
- import-xml.sh/import-xml.bat, Running Proximity applications, Importing databases using XML, Importing XML data using noChecks, Proximity Shell Scripts and Batch Files
- importing
-
- classes in scripts, Importing Proximity packages
- noChecks option, Importing XML data using noChecks
- text data, Importing Plain Text Data, Importing database elements using plain text, Updating databases using plain text, Proximity Text Data Format
- XML data, Importing XML Data, Transforming Tabular Data to XML, Proximity XML Format
- independence assumption, Conventional Knowledge Discovery
- independent and identically distributed, Synthetic Data Generation
- inducing models, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- init-db (db-util option), Running Proximity applications, Importing databases using XML, Importing databases using plain text, Code example: generate-iid-data.py, Proximity Shell Scripts and Batch Files
- init-mserver.mil script, Running the MonetDB database server, Importing databases using XML, Importing databases using plain text, Exploring Objects and Links, MonetDB Server
- initializing databases, Importing databases using XML, Importing databases using plain text, Updating databases using plain text
- installation, Installing MonetDB, Installing Proximity
- instantiating models, Code example: run-1d-clusters-rbc.py
- interpreter (see Python interpreter)
- interpreting RPTs, Understanding relational probability trees
- intersect(), Working with Proximity Tables
- isProxTablesEmpty(), Code example: generate-iid-data.py
- ItemSource class, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
L
- labels (see names)
- layout
-
- of queries, A First Proximity Query
- of subgraphs, Exploring Containers and Subgraphs
- learn(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- limiting query matches, Grouping Elements in a Query
- links
-
- attributes of, Exploring Objects and Links, Exploring Attributes, Working with Proximity Tables
- creating with queries, Adding Links to Data with Queries, Adding Links to Data with Queries
- directedness, A First Proximity Query
- and edges, Overview
- exploring, Exploring Objects and Links, Using the Location Bar
- IDs for, Working with Proximity Tables
- importing, Importing database elements using XML
- Proximity tables for, Working with Proximity Tables
- setting display preferences, Setting Display Preferences
- specifications for new, Adding Links to Data with Queries
- text representation, links.data
- type information, Analyzing the Database Schema
- XML representation, Links
- Linux
-
- MonetDB installation, Installing MonetDB
- Proximity installation, Installing Proximity
- shell scripts, Running Proximity applications, Running Proximity applications, Proximity Shell Scripts and Batch Files
-
- (see also specific shell scripts)
- load(), Code example: generate-iid-data.py
- location bar
-
- in graphical data browser, Visualizing Data
- in Proximity Database Browser, Using the Location Bar, Exploring Containers and Subgraphs, Location Bar Path Syntax
- log4j package, Logging options
- logging options, Logging options
- LoggingListener class, Code example: run-1d-clusters-rdn.py
- logical operators, A First Proximity Query, Tips and Reminders, Working with Proximity Tables
M
- Mac OS X
-
- MonetDB installation, Installing MonetDB
- Proximity installation, Installing Proximity
- shell scripts, Running Proximity applications, Running Proximity applications, Proximity Shell Scripts and Batch Files
-
- (see also specific shell scripts)
- match phase in query processing, Adding Links to Data with Queries
- matching queries, Overview, A First Proximity Query, Grouping Elements in a Query
- method name completion, Using the Proximity Python Interpreter
- methods
-
- addAttribute(), Adding a New Attribute
- addClusterCoeffAttribute(), Clustering coefficient
- addHubsAndAuthoritiesAttributes(), Hubs and authorities
- apply(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- browse(), Code Example: Finding Selected Objects, Working with Proximity Tables
- computeConnectedComponents(), Connected components
- defineAttribute(), Attributes
- describe(), Working with Proximity Tables
- find(), Code Example: Finding Selected Objects
- getAttrNST(), Working with Proximity Tables
- getAUC(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- getConditionalLogLikelihood(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py
- getDbName(), Code example: helloworld.py
- getObjects(), Working with Proximity Tables
- getStringFromUser(), Code example: create-isStudent-attr.py
- getSubgraphAttrs(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- getYesNoFromUser(), Code example: create-isStudent-attr.py, Code example: generate-iid-data.py
- getZeroOneLoss(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- intersect(), Working with Proximity Tables
- isProxTablesEmpty(), Code example: generate-iid-data.py
- learn(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- load(), Code example: generate-iid-data.py
- sampleContainer(), Code example: sample-1d-clusters.py
- save(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py
- savePredictions, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- setTrueLabels(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- MIL, Running the MonetDB database server
- models
-
- applying, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- classification, Relational Bayesian Classifier, Relational Probability Trees
- evaluating, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- features in, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py
- inducing, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- instantiating, Code example: run-1d-clusters-rbc.py
- probabilistic, Overview, Relational Probability Trees
- relational Bayesian classifier, Relational Bayesian Classifier, Code example: run-1d-clusters-rbc.py
- relational dependency networks, Code example: generate-iid-data.py, Relational Dependency Networks, Viewing relational dependency networks
- relational probability trees, Code example: generate-iid-data.py, Relational Probability Trees, Understanding relational probability trees
- statistical, Relational Knowledge Discovery
- XML representation of, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- modifying
-
- data (see updating)
- queries (see editing)
- Monet Interpreter Language (see MIL)
- MonetDB
-
- character conversion for, Importing XML Data, Importing Plain Text Data, Proximity XML Format, Proximity Text Data Format
- connecting to, Running the MonetDB database server
- documentation, Running the MonetDB database server, Installing MonetDB
- installing, Installing MonetDB, Installing MonetDB
- obtaining, Obtaining Proximity
- optimized operations, Exploring Objects and Links, Analyzing the Database Schema
- server, Running the MonetDB database server, Running the MonetDB database server, Exploring Objects and Links, MonetDB Server
- versions, Running the MonetDB database server, Obtaining Proximity, Updating MonetDB Databases
- Mserver command, Running the MonetDB database server, Importing databases using XML, Importing databases using plain text, Exploring Objects and Links, MonetDB Server
- Mserver.bat (see Mserver command)
- multiple conditions, A First Proximity Query
- multiple constraints, Tips and Reminders
N
- names
-
- of containers, A First Proximity Query
- of edges, A First Proximity Query
- matching case in Proximity, A First Proximity Query
- setting display preferences, Setting Display Preferences
- of vertices, A First Proximity Query
- negated query elements, Grouping Elements in a Query
- nested containers, Exporting database elements to XML, Containers
- nested synchronized tables (see NSTs)
- noChecks import option, Importing XML Data
- NormalDistribution class, Code example: generate-iid-data.py
- NST browser, Working with Proximity Tables, Working with Proximity Tables
-
- filtering in, Working with Proximity Tables
- starting, Working with Proximity Tables
- NSTs, Working with Proximity Tables, Working with Proximity Tables
-
- exporting data from, Exporting NST data, Working with Proximity Tables
- shortcut names, The prox object, Working with Proximity Tables
- standard Proximity tables, Working with Proximity Tables
- numeric annotations, Grouping Elements in a Query, Grouping Elements in a Query, Tips and Reminders
O
- objects
-
- attributes of, Exploring Objects and Links, Exploring Attributes, Working with Proximity Tables
- exploring, Exploring Objects and Links, Using the Location Bar
- IDs for, Visualizing Data, Working with Proximity Tables
- importing, Importing database elements using XML
- Proximity tables for, Working with Proximity Tables
- setting display preferences, Setting Display Preferences
- text representation, objects.data
- type information, Analyzing the Database Schema
- and vertices, Overview
- XML representation, Objects
- OIDs, Working with Proximity Tables
- one-dimensional star query structure, Grouping Elements in a Query
- opening (see starting)
- operating systems (see specific operating system)
- operators
-
- comparison, A First Proximity Query, Comparing Items in a Query
- filter, Working with Proximity Tables
- logical, A First Proximity Query, Tips and Reminders, Working with Proximity Tables
- optional query elements, Grouping Elements in a Query
- OS X (see Mac OS X)
P
- packages, Importing Proximity packages
- PATH, Running the MonetDB database server, Running Proximity applications, MonetDB Server, Installing MonetDB, Installing Proximity
- path in location bar, Using the Location Bar, Exploring Containers and Subgraphs, Location Bar Path Syntax
- permissions, Installing Proximity
- persistence, Overview
- port number, Running Proximity applications, Importing databases using XML, Importing databases using plain text, Exploring Objects and Links
- precedence of vertex and edge annotations, Grouping Elements in a Query
- predicting attributes, Code example: generate-iid-data.py, The Modeling Process in Proximity, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Understanding relational probability trees, Code example: run-1d-clusters-rdn.py
- Predictions class, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- preferences
-
- graphical data browser, Visualizing Data
- Proximity Database Browser, Setting Display Preferences
- probabilistic models, Overview, Relational Probability Trees
- probability estimation trees, Code example: run-1d-clusters-rpt.py
- project-people query, Matching Complex Subgraphs with Subqueries
- prox object, The prox object, Code example: sample-1d-clusters.py
- prox-accessory.dirs, File and directory shortcuts
- prox3db.dtd, DTD files, Overview, Importing databases using XML, DTD Files, Proximity XML Format
- PROX_HOME, Setting up your environment, Installing Proximity
- Proximity
-
- API, Using Proximity, Running Proximity applications, Overview
- applications (see individual applications)
- client, Obtaining Proximity
- compiling, Running Proximity applications, Proximity Shell Scripts and Batch Files
- data model, A First Proximity Query, Working with Proximity Tables
- data types, Attributes, Subgraphs
- installing, Installing Proximity, Installing Proximity
- logging options, Logging options
- obtaining, Obtaining Proximity
- standard NST tables, Working with Proximity Tables
- updating, Updating MonetDB Databases
- visualizing data in, Visualizing Data
- Proximity class, The prox object
- Proximity Database Browser
-
- executing queries, Executing a Query from the Proximity Database Browser
- location bar, Using the Location Bar, Exploring Containers and Subgraphs, Location Bar Path Syntax
- new window, Exploring Containers and Subgraphs
- overview, The Proximity User Interface
- running applications, Running Proximity applications
- running scripts, Code example: helloworld.py
- setting preferences, Setting Display Preferences
- starting, Exploring Objects and Links
- updating data
-
- creating attributes, Exploring Attributes, Adding a New Attribute
- deleting attributes, Exploring Attributes
- deleting containers, Exploring Containers and Subgraphs
- proximity.jar, Running Proximity applications, Proximity Shell Scripts and Batch Files
- ProxWebKB database, Using the Tutorial, Setting up your environment, Importing XML Data, Exploring Objects and Links
- proxy nodes, Visualizing Data
- Python
-
- interpreter, Overview, Using the Proximity Python Interpreter, Working with Proximity Tables
- running scripts, Code example: helloworld.py
- scripting, Using Proximity, Running Proximity applications, Overview, Overview
Q
- QGraph, Relational Knowledge Discovery, Overview
- queries
-
- 1d-star structure, Grouping Elements in a Query
- 2d-star structure, Matching Complex Subgraphs with Subqueries
- against containers, Exploring Containers and Subgraphs, Querying Containers
- creating, A First Proximity Query, A First Proximity Query
- examples
-
- 1d-clusters, Executing a Query from the Proximity Database Browser
- add-supervises-links, Adding Links to Data with Queries
- cornell-out-clusters, Querying Containers
- different-schools, Comparing Items in a Query
- project-people, Matching Complex Subgraphs with Subqueries
- research-clusters1, A First Proximity Query
- research-clusters2, Grouping Elements in a Query, Executing a Query from the Command Line
- executing, Overview, A First Proximity Query, Executing a Query from the Proximity Database Browser, Executing a Query from the Command Line
- layout in Query Editor, A First Proximity Query
- matching, Overview, A First Proximity Query, Grouping Elements in a Query
- processing phases, Adding Links to Data with Queries
- results, Overview, Grouping Elements in a Query
-
- (see also subgraphs)
- update functionality, Overview, Adding Links to Data with Queries, Adding Links to Data with Queries, Tips and Reminders
- use in data generation, Code example: generate-iid-data.py
- validating, A First Proximity Query
- XML representation, DTD files, Overview
- Query Editor
-
- add link tool, Adding Links to Data with Queries
- automatic edge annotation, Grouping Elements in a Query
- constraint tool, Comparing Items in a Query
- deleting query elements, A First Proximity Query
- edge tool, A First Proximity Query
- keyboard shortcuts, A First Proximity Query, Query Editor Keyboard Shortcuts
- selection tool, A First Proximity Query
- starting, A First Proximity Query
- subquery tool, Matching Complex Subgraphs with Subqueries
- vertex tool, A First Proximity Query
- query.sh/query.bat, Running Proximity applications, Executing a Query from the Command Line, Proximity Shell Scripts and Batch Files
- quitting the MonetDB server, Running the MonetDB database server, MonetDB Server
R
- ranges in numeric annotations, Grouping Elements in a Query
- RBC (see relational Bayesian classifier)
- RBC class, Code example: run-1d-clusters-rbc.py
- rbc2.dtd, DTD files, DTD Files
- RDN (see relational dependency networks)
- RDN class, Code example: run-1d-clusters-rdn.py
- rdn.dtd, DTD files, Viewing relational dependency networks, DTD Files
- relational Bayesian classifier, Relational Bayesian Classifier, Code example: run-1d-clusters-rbc.py
- relational data, Introduction
- relational dependency networks, Relational Dependency Networks, Viewing relational dependency networks
-
- use in data generation, Code example: generate-iid-data.py
- visualizing, Viewing relational dependency networks, Viewing relational dependency networks
- relational probability trees, Relational Probability Trees, Understanding relational probability trees
-
- interpreting, Understanding relational probability trees
- temporal attributes in, Using temporal attributes in a relational probability
tree, Using temporal attributes in a relational probability
tree
- use in data generation, Code example: generate-iid-data.py
- visualizing, Understanding and viewing relational probability trees
- removing (see deleting)
- reports from schema analysis, Analyzing the Database Schema
- requirements for Java, Obtaining Proximity
- research-clusters1 query, A First Proximity Query
- research-clusters2 query, Grouping Elements in a Query, Executing a Query from the Command Line
- results of queries, Overview, Grouping Elements in a Query
-
- (see also subgraphs)
- ROC curve, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- root container, Exporting Data to XML, Exploring Containers and Subgraphs
- row count, Exploring Attributes
- RPT (see relational probability trees)
- RPT class, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- rpt2.dtd, DTD files, Understanding and viewing relational probability trees, Code example: run-1d-clusters-rdn.py, Viewing relational dependency networks, DTD Files
- run-1d-clusters-rbc.py script, Code example: run-1d-clusters-rbc.py
- run-1d-clusters-rdn.py script, Code example: run-1d-clusters-rdn.py
- run-1d-clusters-rpt.py script, Code example: run-1d-clusters-rpt.py
- running
-
- queries, Overview, A First Proximity Query, Executing a Query from the Proximity Database Browser, Executing a Query from the Command Line
- scripts, Running Proximity Scripts
S
- sample-1d-clusters.py script, Code example: sample-1d-clusters.py
- sampleContainer(), Code example: sample-1d-clusters.py
- sampling, Sampling the Database, Code example: sample-1d-clusters.py
- save(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py
- savePredictions(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- saving
-
- queries, A First Proximity Query
- relational Bayesian classifiers, Code example: run-1d-clusters-rbc.py
- relational probability trees, Code example: run-1d-clusters-rpt.py, Understanding and viewing relational probability trees, Code example: run-1d-clusters-rdn.py
- schema analysis reports, Analyzing the Database Schema
- schema analysis, Analyzing the Database Schema
- script.sh/script.bat, Running Proximity applications, Code example: helloworld.py, Proximity Shell Scripts and Batch Files
- scripts, Running Proximity applications, Using Scripts, Proximity Shell Scripts and Batch Files
-
- (see also shell scripts)
- accessing API via, Running Proximity applications
- create-isStudent-attr.py, Code example: create-isStudent-attr.py
- examples
-
- generate-iid-data.py, Code example: generate-iid-data.py
- helloworld.py, Code example: helloworld.py
- run-1d-clusters-rbc.py, Code example: run-1d-clusters-rbc.py
- run-1d-clusters-rdn.py, Code example: run-1d-clusters-rdn.py
- run-1d-clusters-rpt.py, Code example: run-1d-clusters-rpt.py
- sample-1d-clusters.py, Code example: sample-1d-clusters.py
- social-networking-algs.py, Code example: social-networking-algs.py
- importing classes, Importing Proximity packages
- init-mserver.mil, Running the MonetDB database server, Importing databases using XML, Importing databases using plain text, Exploring Objects and Links, MonetDB Server
- running, Running Proximity Scripts
- text2xml.pl, Transforming Tabular Data to XML
- searching for attribute values, Code Example: Finding Selected Objects
- selection tool, A First Proximity Query
- server (see MonetDB, server)
- setting display preferences, Setting Display Preferences
-
- (see also layout)
- setTrueLabels(), Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- shell scripts, Running Proximity applications, Running Proximity applications, Proximity Shell Scripts and Batch Files
-
- db-util.sh, Running Proximity applications, Importing databases using XML, Importing databases using plain text, Code example: generate-iid-data.py, Proximity Shell Scripts and Batch Files, Updating databases using plain text
- export-text.sh, Running Proximity applications, Exporting databases using plain text, Proximity Shell Scripts and Batch Files, Updating databases using plain text
- export-xml.sh, Running Proximity applications, Exporting databases to XML, Exporting database elements to XML, Proximity Shell Scripts and Batch Files
- file permissions for, Installing Proximity
- gui.sh, Running Proximity applications, Exploring Objects and Links, Proximity Shell Scripts and Batch Files
- import-text.sh, Running Proximity applications, Importing databases using plain text, Proximity Shell Scripts and Batch Files, Updating databases using plain text
- import-xml.sh, Running Proximity applications, Importing databases using XML, Importing XML data using noChecks, Proximity Shell Scripts and Batch Files
- query.sh, Running Proximity applications, Executing a Query from the Command Line, Proximity Shell Scripts and Batch Files
- script.sh, Running Proximity applications, Code example: helloworld.py, Proximity Shell Scripts and Batch Files
- shortcuts
-
- to data structures, The prox object, Working with Proximity Tables
- for file access, File and directory shortcuts
- for Query Editor, A First Proximity Query, Query Editor Keyboard Shortcuts
- social networking algorithms, Social Networking Algorithms
- social-networking-algs.py script, Code example: social-networking-algs.py
- special characters
-
- in container names, A First Proximity Query
- in text data representation, Importing Plain Text Data, Exporting Plain Text Data, Proximity Text Data Format
- in XML data representation, Importing XML Data, Proximity XML Format
- starting
-
- MonetDB server, Running the MonetDB database server, Exploring Objects and Links, MonetDB Server
- NST browser, Working with Proximity Tables
- Proximity Database Browser, Exploring Objects and Links
- Query Editor, A First Proximity Query
- statistical
-
- independence, Conventional Knowledge Discovery
- models, Relational Knowledge Discovery
- stopping the MonetDB server, Running the MonetDB database server, MonetDB Server
- subgraphs
-
- as query results, Overview, Grouping Elements in a Query
- attributes of, Code example: sample-1d-clusters.py, Subgraphs, Subgraph attribute specification files
- exploring, Exploring Containers and Subgraphs, Exploring Containers and Subgraphs
- text representation, Subgraph data files
- visualizing, Exploring Containers and Subgraphs
- XML representation, Subgraphs
- subqueries, Matching Complex Subgraphs with Subqueries, Matching Complex Subgraphs with Subqueries
- subquery tool, Matching Complex Subgraphs with Subqueries
- support (see technical support)
- synthetic data generation, Synthetic Data Generation, Code example: generate-iid-data.py
- SyntheticGraphIID class, Code example: generate-iid-data.py
T
- tables in Proximity databases, Working with Proximity Tables, Working with Proximity Tables
- tabular data, Transforming Tabular Data to XML
- technical support, Contact information, Technical Support and Documentation
- temporal attributes, Using temporal attributes in a relational probability
tree, Using temporal attributes in a relational probability
tree
- TemporalAttributeSource class, Using temporal attributes in a relational probability
tree
- TemporalItemSource class, Using temporal attributes in a relational probability
tree
- test sets
-
- creating, Code example: sample-1d-clusters.py
- use in models, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- test-db (db-util option), Running Proximity applications, Proximity Shell Scripts and Batch Files
- text data
-
- exporting, Exporting Plain Text Data, Exporting NST data
- format, Proximity Text Data Format, Subgraph attribute data files
- importing, Importing Plain Text Data, Importing database elements using plain text
- text2xml.pl, Transforming Tabular Data to XML
- thumbnails of subgraphs, Exploring Containers and Subgraphs
- training models, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- training sets
-
- creating, Code example: sample-1d-clusters.py
- use in models, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py
- two-dimensional star query structure, Matching Complex Subgraphs with Subqueries
- type of an object or link, Analyzing the Database Schema
V
- validating queries, A First Proximity Query
- vertex tool, A First Proximity Query
- vertices
-
- in constraints, Comparing Items in a Query
- creating, A First Proximity Query, A First Proximity Query
- names of, A First Proximity Query
- and objects, Overview
- on subquery boundaries, Tips and Reminders
- view-schema (db-util
option), Running Proximity applications, Proximity Shell Scripts and Batch Files
- view-stats (db-util option), Running Proximity applications, Proximity Shell Scripts and Batch Files
- visualizing
-
- data, Visualizing Data, Visualizing Data
- relational dependency networks, Viewing relational dependency networks, Viewing relational dependency networks
- relational probability trees, Understanding and viewing relational probability trees
- subgraphs, Exploring Containers and Subgraphs
W
- WebKB data set, Importing databases using XML
- wildcards in interactive Python interpreter, Code Example: Finding Selected Objects
- Windows
-
- batch files, Running Proximity applications, Running Proximity applications, Proximity Shell Scripts and Batch Files
-
- (see also specific batch files)
- environment variables, Setting up your environment, Installing Proximity
- MonetDB installation, Installing MonetDB
- Proximity installation, Installing Proximity
- wrapper file for RDN visualization, Viewing relational dependency networks
X
- XML
-
- converting tabular data to, Transforming Tabular Data to XML
- model representation, Code example: run-1d-clusters-rbc.py, Code example: run-1d-clusters-rpt.py, Code example: run-1d-clusters-rdn.py
- query representation, DTD files, Overview
- XML data
-
- exporting, Exporting Data to XML, Exporting database elements to XML
- format, Proximity XML Format, Subgraphs
- importing, Importing XML Data, Transforming Tabular Data to XML