Graph database

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Halaman ini terakhir disunting oleh JohnThorne (kontribusi | log) pada 18:16, 19 Desember 2014 (UTC) (9 tahun lalu)

Didalam dunia ilmu komputer, graph database adalah database yg menggunakan struktur data graph yg memiliki komponen node, edge dan properties unutk merepresentasikan penyimpanan data. Graph database menyediakan index-free adjacency yang artinya setiap elemen berisi direct pointer ke adjacent element dan tidak membutuhkan lagi suatu index lookups.

Berikut struktur dari graph database

[4]

Graph database

Nodes represent entities such as people, businesses, accounts, or any other item you might want to keep track of.

Properties are pertinent information that relate to nodes. For instance, if "Wikipedia" were one of the nodes, one might have it tied to properties such as "website", "reference material", or "word that starts with the letter 'w'", depending on which aspects of "Wikipedia" are pertinent to the particular database.

Edges are the lines that connect nodes to nodes or nodes to properties and they represent the relationship between the two. Most of the important information is really stored in the edges. Meaningful patterns emerge when one examines the connections and interconnections of nodes, properties, and edges.

Properties

Compared with relational databases, graph databases are often faster for associative data sets, and map more directly to the structure of object-oriented applications. They can scale more naturally to large data sets as they do not typically require expensive join operations. As they depend less on a rigid schema, they are more suitable to manage ad hoc and changing data with evolving schemas. Conversely, relational databases are typically faster at performing the same operation on large numbers of data elements.

Graph databases are a powerful tool for graph-like queries, for example computing the shortest path between two nodes in the graph. Other graph-like queries can be performed over a graph database in a natural way (for example graph's diameter computations or community detection).

Graph database projects

The following is a list of several well-known graph database projects:

Name	Version	License	Language	Description
AllegroGraph	4.14.1 (September 2014)	Proprietary, Clients - Eclipse Public License v1	C#, C, Common Lisp, Java, Python	A RDF and graph database.
ArangoDB	2.2.1 (July 2014)	Apache 2	C, C++ & Javascript	A distributed multi-model document store and graph database. Highly scalable supporting ACID and full transaction support. Including a built-in graph explorer.
Bigdata	1.3.1 (May 2014)	GPLv2, evaluation license, or commercial license.	Java	A RDF/graph database capable of clustered deployment. Bigdata supports high availability (HA) mode, embedded mode, single server mode. As of version 1.3.1, it supports the Blueprints API and Reification Done Right (RDR).
Bitsy	1.5.0	AGPL, Enterprise license (unlimited use, annual/perpetual)	Java	A small, embeddable, durable in-memory graph database
BrightstarDB		MIT License	C#	An embeddable NoSQL database for the .NET platform with code-first data model generation.
Cayley	0.4.0 (August 2014)	Apache 2	Go	An open-source graph inspired by the graph database behind Freebase and Google's Knowledge Graph.
DEX/Sparksee	5.1.0 (2014)	evaluation, research or development use (free) / commercial use	C++	A high-performance and scalable graph database management system from Sparsity Technologies, a technology transition company from DAMA-UPC. Its main characteristics is its query performance for the retrieval & exploration of large networks. Sparksee 5 mobile is the first graph database for mobile devices.
Filament		BSD	Java	A graph persistence framework and associated toolkits based on a navigational query style.
GraphBase	1.0.03a	Proprietary	Java	A customizable, distributed, small-footprint graph store with a rich tool set from FactNexus.
Graphd		Proprietary		The proprietary back-end of Freebase.
Horton		Proprietary	C#	A graph database from Microsoft Research Extreme Computing Group (XCG) based on the cloud programming infrastructure Orleans.
HyperGraphDB	1.2 (2012)	LGPL	Java	A graph database supporting generalized hypergraphs where edges can point to other edges.
IBM System G Native Store	v1.0 (July 2014)	Proprietary	C, C++, Java	A high performance graph store using natively implemented graph data structures and primitives for achieving superior efficiency. IBM System G Native Store can handle various simple graphs, property graphs, and RDF graphs, in terms of storage, analytics, and visualization. Native Store is accessible from most programming languages by providing APIs in C++, Java (Tinkerpop/Blueprints), and Python. Its gShell graph command collection and the Native Store REST APIs provide language-free interfaces.
InfiniteGraph	3.0 (January 2013)	Proprietary	Java	A distributed and cloud-enabled commercial product with flexible licensing.
InfoGrid	2.9.5 (2011)	AGPLv3, free for small entities	Java	A graph database with web front end and configurable storage engines (MySQL, PostgreSQL, Files, Hadoop).
jCoreDB Graph				An extensible database engine with a graph database subproject.
MapGraph	v3 (2014)	Apache 2	CUDA	MapGraph is Massively Parallel Graph processing on GPUs. The MapGraph API makes it easy to develop high performance graph analytics on GPUs. The API is based on the Gather-Apply-Scatter (GAS) model as used in GraphLab. MapGraph is up to two orders of magnitude faster than parallel CPU implementations on up 24 CPU cores and has performance comparable to a state-of-the-art manually optimized GPU implementation. New algorithms can be implemented in a few hours that fully exploit the data-level parallelism of the GPU and offer throughput of up to 3.3 billion traversed edges per second on a single GPU. and up to 30 billion traversed edges per second on a cluster with 64 GPUs
Neo4j	2.1.6 (November 2014)	GPLv3 Community Edition. Commercial & AGPLv3 options for Enterprise and Advanced editions	Java	A highly scalable open source graph database that supports ACID, has high-availability clustering for enterprise deployments, and comes with a web-based administration tool that includes full transaction support and visual node-link graph explorer. Neo4j is accessible from most programming languages using its built-in REST web API interface. Neo4j is the most popular graph database in use today.
Orly	[5] (March 2014)	Apache 2	C++	A highly scalable open source graph database. Orly is accessible from most programming languages using its built-in REST web API interface. Orly is a popular graph database in use today.
OpenLink Virtuoso	7.1 (March 2014)	GPLv2 for Open Source Edition. Proprietary for Enterprise Edition.	C, C++	A hybrid database server handling RDF and other graph data, RDB/SQL data, XML data, filesystem documents/objects, and free text. May be deployed as a local embedded instance (as used in the Nepomuk Semantic Desktop), a single-instance network server, or a shared-nothing elastic-cluster multiple-instance networked server.
Oracle Spatial and Graph	11.2 (2012)	Proprietary	Java, PL/SQL	1) RDF Semantic Graph: comprehensive W3C RDF graph management in Oracle Database with native reasoning and triple-level label security. 2) Network Data Model property graph: for physical/logical networks with persistent storage and a Java API for in-memory graph analytics.
Oracle NoSQL Database	2.0.39 (2013)	Proprietary	Java	RDF Graph for Oracle NoSQL Database is a feature of Enterprise Edition providing W3C RDF graph capabilities in NoSQL Database.
OrientDB	1.7.10 (November 2014)	Community Edition Apache 2, Enterprise Edition is Commercial	Java	OrientDB is a 2nd Generation Distributed Graph Database with the flexibility of Documents in one product with an Open Source commercial friendly license (Apache 2 license). It has a multi-master replication and sharding. Supports schema-less, schema-full and schema-mixed modes. Has a strong security profiling system based on user and roles and supports SQL amongst the query languages. Thanks to the SQL layer, it's straightforward to use for those skilled in the relational database world.
OQGRAPH		GPLv2		A graph computation engine for MySQL, MariaDB and Drizzle.
Ontotext OWLIM	5.3	OWLIM Lite is free OWLIM SE and Enterprise are commercially licenced	Java	A graph database engine, based entirely on Semantic Web standards from W3C: RDF, RDFS, OWL, SPARQL. OWLIM Lite is an "in memory" engine. OWLIM SE is robust standalone database engine. OWLIM Enterprise is a clustered version which offers horizontal scalability and failover support and other enterprise features.
R2DF				R2DF framework for ranked path queries over weighted RDF graphs.
ROIS		Freeware	Modula-2	A programmable knowledge server that supports inheritance and transitivity. Used in OpenGALEN as a Terminology Server.
sones GraphDB		AGPLv3	C#	A graph database and universal access layer (funded by Deutsche Telekom).
SPARQLCity	v1.0.95 (October 2014)	GPLv3	C, C++ & Javascript	SPARQLCity produces SPARQLVerse: A standards and Hadoop based analytic graph engine for performing rich business analytics on structured and semi-structured data.
Sqrrl Enterprise	v1.5.1 (August 2014)	Proprietary	Java	Distributed, real-time graph database featuring cell-level security and massive scalability.
Stardog	v2.2 (July 2014)	Proprietary	Java	Fast, scalable, pure Java semantic graph database.
Teradata Aster	v6 (2013)	Proprietary	Java, SQL, Python, C++, R	A high performance, multi-purpose, highly scalable and extensible MPP database incorporating patented engines supporting native SQL, MapReduce and Graph data storage and manipulation. An extensive set of analytical function libraries and data visualization capabilities are also provided.
Titan	0.5.2 (2014)	Apache 2	Java	A distributed, real-time, scalable transactional graph database developed by Aurelius.
Trinity			C#, C, X64 Assembly	A distributed general purpose graph engine on a memory cloud.
TripleBit			C/C++	A centralized RDF store.
VelocityGraph		Open source with proprietary back-end	C#	High performance, scalable & flexible graph database build with VelocityDB object database.
VertexDB		Revised BSD	C	A graph database server that supports automatic garbage collection.
Weaver	0.1 (December 2014)	BSD licenses	C, Python	A fast, scalable, ACID transactional graph database with replication and migration.
WhiteDB	0.7.0 (October 2013)	GPLv3 and a free commercial licence	C	A graph/N-tuples shared memory database library.
OhmDB	1.0.0 (August 2014)	Apache 2	Java	RDBMS + NoSQL Database for Java.

Graph database features

The following table compares the features of the above graph databases.

Name	Graph Model	API	Query Methods	Visualizer	Consistency	Backend	Scalability
AllegroGraph	RDF	Java, Java:Sesame, JavaJena, Python, Ruby, Perl, C#, Clojure, Lisp, Scala, REST	SPARQL 1.1, Prolog, JIG, JavaScript	Gruff - View Graphs, Visual Query Builder for SPARQL and Prolog	ACID	Native Graph Storage	1 Trillion RDF triples
ArangoDB	Property Graph	JavaScript, Blueprints, REST	Graph Traversals via JavaScript, Gremlin	Built-in graph explorer	MVCC/ACID	native C/C++	Replication and Sharding
Bigdata	RDF	Java, Sesame, Blueprints, Gremlin, SPARQL, REST	SPARQL, Gremlin	Bigdata Workbench UI	MVCC/ACID	Native Java	Embedded, Client/Server, High Availability (HA)
Bitsy	Property Graph	Blueprints	Gremlin, Pixy		ACID with optimistic concurrency control	Human-readable JSON-encoded text files with checksums and markers for recovery
DEX/Sparksee	Labeled and directed attributed multigraph	Java, C++, .NET, Python	Native Java, C#, Python and C++ APIs, Blueprints, Gremlin	Exporting functionality to visualization formats	Consistency, durability and partial isolation and atomicity	Native graph. light and independent data structures with a small memory footprint for storage	Master/Slave replication
Filament
GraphBase Enterprise(1) GraphBase Agility(2)	(1) mixed, (2) Framework-managed Simple Graph	Java	Bounds Language, embedded java	GraphPad, BoundsPad, Navigator	ACID, graph-based transactions	proprietary native	(1) shared nothing distributed, (2) simple replication, 100+ Billion arcs per server
Graphd
Horton	Attributed multigraph		Horton Query Language (Regular Language Expression + SQL)			C#, .Net Framework, Asynchronous communication protocols
HyperGraphDB	Object-oriented multi-relational labeled hypergraph	Custom,Java			MVCC/STM
IBM System G Native Store	Property Graph, RDF*	C++, Java, Python	Native Store gShell, Gremlin, SPARQL	Built-in Visualizer	ACID	Native Graph Storage	Both scale-up (using multithreading) and scale-out (using IBM PAMI)
InfiniteGraph	Labeled and directed multi-property graph	Java, Blueprints (Read Only)	Java (with parallel, distributed queries), Gremlin (Read Only)	Graph browser for developers. Plugins to allow use of external libraries.	ACID. There is also a parallel, loosely synchronized batch loader.	Objectivity/DB on standard filesystems	Distributed & Sharded. Objectivity/DB was the first DBMS to store a Petabyte of objects.
InfoGrid	Dynamically typed, object-oriented graph, multigraphs, semantic models
jCoreDB Graph
Neo4j	Property Graph	Java, Python, JPython, Ruby, JRuby, JavaScript (Node.js), PHP, .NET, Django, Clojure, Spring, Scala, or REST (any language)	Cypher (native/preferred), Native Java APIs (special cases), Traverser API, REST, Blueprints, Gremlin	Data Browser included. Supports a variety of 3rd party tools: Gephi, Linkurio.us, Cytoscape, Tom Sawyer, Keylines, etc.	ACID	Native graph storage with native graph processing engine	Horizontal read scaling via master-slave clustering with cache sharding.
OpenLink Virtuoso	RDF graph: Triple & Quad (named graphs); expandable column store	SPARQL, XMLA, ODBC, JDBC, ADO.NET, OLE DB, Jena, Sesame, Virtuoso PL/SQL, Java, Python, Perl, PHP, HTTP, etc.	SPARQL 1.1; SPARQL web service endpoint; SQL; others	Pivot Viewer (Silverlight or HTML5); OpenLink Data Explorer; SPARQL-compliant tools; Apache Jena-based tools; XML & JSON-based tools; SQL based tools	ACID	Internal column-store or row-store (depending on licensure), hybrid RDF/SQL/RDB engine	Infinite via Commercial Edition's Cluster Module elastic cluster functionality; simple master-slave clustering of single-server instances also an option.
Oracle Spatial and Graph	RDF graph: Triple & Quad (named graphs); Network Data Model property graph	Java; Apache Jena; PL/SQL	SPARQL 1.1; SPARQL web service end point; SQL	SPARQL-compliant tools; Apache Jena-based tools; XML & JSON-based tools; SQL based tools	ACID	Efficient, compressed, partitioned graph storage; Native persisted in-database inferencing; SPARQL 1.1 & SQL integration; Triple-level label security; Semantic indexing of documents	Parallel load, query, inference; Query controls; Scales from PC to Oracle Exadata; Supports Oracle Real Application Clusters and Oracle Database 8 exabytes
Oracle NoSQL Database	RDF graph: Triple default graph, Triple & Quad named graphs	Java (Apache Jena)	SPARQL 1.1; SPARQL web service end point	SPARQL-compliant tools; Apache Jena-based tools; XML & JSON-based tools	ACID; Configurable consistency & durability policies	Key/value store; W3C SPARQL 1.1 & Update; In-memory RDFS/OWL inferencing	Parallel load/query; Query controls for: parallel execution, timeout, query optimization hints
OrientDB	Property Graph	Java, Python, JPython, Ruby, JRuby, JavaScript (Node.js), PHP, .NET, Clojure, Spring, Scala, or REST (any language)	Own SQL-like Query Language, REST, Blueprints, Gremlin, SparQL (via Blueprints)	Console and Studio Web tool supporting also graph editor	ACID, MVCC	Custom on disc or in memory	Horizontal read and write scaling via multi-master replication + sharding.
OQGRAPH
R2DF
ROIS
sones GraphDB
Sqrrl Enterprise	Property Graph	Thrift, Blueprint	Own SQL-like query language and Java API	Integrates with 3rd party tools	Fully Consistent and ACID (transactions limited to a single graph node)	Apache Accumulo	Distributed cluster with tens of trillions of edges
Stardog	RDF	Java, Sesame, Jena, SNARL, HTTP/REST, Python, Ruby, Node.js, C#, Clojure, Spring	SPARQL 1.1	Stardog Web, Pelorus	ACID	Native Graph Storage	50 billion RDF triples on $10,000 server
Titan	Property Graph	Java, Blueprints, REST, RexPro binary protocol, Python, Clojure (any language)	Gremlin, SPARQL || Integrates with 3rd party tools || ACID or Eventually Consistent || Apache Cassandra, Apache HBase, MapR M7 Tables, Berkeley DB, Persistit, Hazelcast || Distributed cluster (120 billion+ edges) or single server.
Trinity	Cell Based Graph Model	C#	Trinity Query Language		Cell level Atomicity	Native graph store and processing engine	billion node in-memory graph
TripleBit	Labeled direct graph	C, C++	SPARQL		ACID or Eventually Consistent]	Native graph store and processing engine	billion triples
VertexDB
Weaver	Property Graph	C, Python	Node programs		ACID	HyperDex	Automatic replication and migration

Distributed Graph Processing

• Angrapa - graph package in Hama, a bulk synchronous parallel (BSP) platform
• Apache Hama - a pure BSP(Bulk Synchronous Parallel) computing framework on top of HDFS (Hadoop Distributed File System) for massive scientific computations such as matrix, graph and network algorithms.
• Bigdata - A RDF/graph database capable of clustered deployment. Bigdata supports high availability (HA) mode, embedded mode, single server mode and has available commercial licenses. As of version 1.3.1, it supports the Blueprints API and Reification Done Right (RDR).
• Faunus - a Hadoop-based graph computing framework that uses Gremlin as its query language. Faunus provides connectivity to Titan, Rexster-fronted graph databases, and to text/binary graph formats stored in HDFS. Faunus is developed by Aurelius.
• FlockDB - an open source distributed, fault-tolerant graph database based on MySQL and the Gizzard framework for managing Twitter-like graph data (single-hop relationships) FlockDB on GitHub.
• Giraph - a Graph processing infrastructure that runs on Hadoop (see Pregel).
• GraphBase - Enterprise Edition supports embedding of callable Java Agents within the vertices of a distributed graph.
• GoldenOrb - Pregel implementation built on top of Apache Hadoop
• GraphLab - A framework for machine learning and data mining in the cloud
• GraphX - GraphLab built on the Spark cluster computing system. Dr. Joseph Gonzalez is the project lead, the creator of GraphLab.
• HipG - a library for high-level parallel processing of large-scale graphs. HipG is implemented in Java and is designed for distributed-memory machine
• IBM System G Graph Analytics Toolkit - A comprehensive graph analytics library consisted of network topological analysis tools, graph matching and search tools, and graph path and flow tools. It has been applied to various use cases and industry solutions.
• InfiniteGraph - a commercially available distributed graph database that supports parallel load and parallel queries.
• JPregel - In-memory java based Pregel implementation
• KDT - An open-source distributed graph library with a Python front-end and C++/MPI backend (Combinatorial BLAS).
• OpenLink Virtuoso - the shared-nothing Cluster Edition supports distributed graph data processing.
• Oracle Spatial and Graph - loading, inferencing, and querying workloads are automatically and transparently distributed across the nodes in an Oracle Real Application Cluster, Oracle Exadata Database Machine, and Oracle Database Appliance.
• Phoebus - Pregel implementation written in Erlang
• Pregel - Google's internal graph processing platform, released details in ACM paper.
• Powergraph - Distributed graph-parallel computation on natural graphs.
• PowerLyra - A distributed graph analytics based on GraphLab using differentiated graph computation and partitioning on skewed (e.g. power-law and bipartite) graphs (dynamically applying different computation and partition strategies for different vertices).
• Cyclops - A computation and communication efficient graph processing system with significantly low communication cost.
• Imitator - A reliable distributed graph processing system with replication-based fault-tolerance.
• Sedge - A framework for distributed large graph processing and graph partition management (including an open source version of Google's Pregel)
• Signal/Collect - a framework for parallel graph processing written in Scala
• Sqrrl Enterprise - distributed graph processing utilizing Apache Accumulo and featuring cell-level security, massive scalability, and JSON support
• Titan - A distributed, disk-based graph database developed by Aurelius.
• Trinity - Distributed in-memory graph engine under development at Microsoft Research Labs.
• Parallel Boost Graph Library (PBGL) - a C++ library for graph processing on distributed machines, part of Boost framework.
• Mizan - An optimized Pregel clone that can be deployed easily on Amazon EC2, local clusters, stand-alone Linux systems and supercomputers (IBM BlueGene/P). It utilizes runtime graph repartitioning between iterations to provide dynamic load balancing for better algorithm performance.
• Weaver - A fast and scalable graph store designed specifically for dynamically-changing graphs

GPGPU Graph Processing

• Medusa - A framework for graph processing using Graphics Processing Units (GPUs) on both shared memory and distributed environments. Medusa allows users with no GPU programming expertise to leverage GPUs for graph processing.

APIs and Graph Query/Programming Languages

• Bounds Language - terse C-style syntax which initiates concurrent traversals in GraphBase and supports interaction between them.
• Blueprints - a Java API for Property Graphs from TinkerPop and supported by a few graph database vendors.
• Blueprints.NET - a C#/.NET API for generic Property Graphs.
• Bulbflow - a Python persistence framework for Rexster, Titan, and Neo4j Server.
• Cypher Query Language - a declarative graph query language for Neo4j that enables ad hoc as well as programmatic (SQL-like) access to the graph
• Gremlin - an open-source graph programming language that works over various graph database systems.
• Neo4jClient - a .NET client for accessing Neo4j.
• Neography - a thin Ruby wrapper that provides access to Neo4j via REST.
• Neo4jPHP - a PHP library wrapping the Neo4j graph database.
• NodeNeo4j - a Node.js driver for Neo4j that provides access to Neo4j via REST
• Pacer - a Ruby dialect/implementation of the Gremlin graph traversal language.
• Pipes - a lazy dataflow framework written in Java that forms the foundation for various property graph traversal languages.
• Pixy - a declarative graph query language that works on any Blueprints-compatible graph database
• PYBlueprints - a Python API for Property Graphs.
• Pygr - a Python API for large-scale analysis of biological sequences and genomes, with alignments represented as graphs.
• Rexster - a graph database server that provides a REST or binary protocol API (RexPro). Supports Titan, Neo4j, OrientDB, Dex, and any TinkerPop/Blueprints-enabled graph.
• RDFSharp - a .NET API for modeling RDF graphs, storing them on many SQL databases (Firebird, MySQL, PostgreSQL, SQL Server, SQLite) and querying them with SPARQL.
• SPARQL - a query language for databases, able to retrieve and manipulate data stored in Resource Description Framework format.
• SPASQL - an extension of the SQL standard, allowing execution of SPARQL queries within SQL statements, typically by treating them as subquery or function clauses. This also allows SPARQL queries to be issued through "traditional" data access APIs (ODBC, JDBC, OLE DB, ADO.NET, etc.)
• Spring Data Neo4j - an extension to Spring Data (part of the Spring Framework), providing direct/native access to Neo4j
• Oracle SQL and PL/SQL APIs - have graph extensions for Oracle Spatial and Graph.
• Styx (previously named Pipes.Net) - a data flow framework for C#/.NET for processing generic graphs and Property Graphs.
• Thunderdome - a Titan Rexster Object-Graph Mapper for Python (no longer maintained)
• Mogwai - a Titan Rexster Object-Graph Mapper for Python - Forked from Thunderdome
• Rexpro-Python - a Titan Rexpro connection handler for Python.

See also

• NoSQL
• Document-oriented database
• Structured storage
• Object database
• Resource Description Framework (RDF) - framework to express node-edge graphs
• Graph transformation for a complementary topic (rule based in memory manipulation of graphs instead of transaction safe persistence).
• RDF Database

External links

• NoSQL Frankfurt 2010 - The GraphDB Landscape and sones
• Graph Databases and the Future of Large-Scale Knowledge Management
• Top Graph Databases
• Social networks in the database: using a graph database
• Scaling Online Social Networks without Pains
• Large-scale Graph Computing at Google
• Eric Lai. (2009, July 1). No to SQL? Anti-database movement gains steam
• Renzo Angles, Claudio Gutierrez. Survey of graph database models. ACM Computing Surveys, Feb. 2008.
• InfoGrid - an open-source application platform including a graph database
• Rodriguez, M.A., Neubauer, P, The Graph Traversal Pattern article.
• Optimizing Schema-Last Tuple-Store Queries in Graphd SIGMOD 2010
• IBM System G Native Graph Store