grip

command module
Version: v0.0.0-...-e9deab3 Latest Latest
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Published: Sep 21, 2021 License: MIT Imports: 4 Imported by: 0

README

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GRIP

https://bmeg.github.io/grip/

GRIP stands for GRaph Integration Platform. It provides a graph interface on top of a variety of existing database technologies including: MongoDB, Elasticsearch, PostgreSQL, MySQL, MariaDB, Badger, and LevelDB.

Properties of an GRIP graph:

  • Both vertices and edges in a graph can have any number of properties associated with them.
  • There are many types of vertices and edges in a graph. Thus two vertices may have myriad types of edges connecting them reflecting myriad types of relationships.
  • Edges in the graph are directed, meaning they have a source and destination.

GRIP also provides a query API for the traversing, analyzing and manipulating your graphs. Its syntax is inspired by Apache TinkerPop. Learn more here.

Pathway Commons

To load Pathway commons into a local instance of GRIP, first download the Pathway commons source file.

curl -O https://www.pathwaycommons.org/archives/PC2/v12/PathwayCommons12.All.BIOPAX.owl.gz

Start grip server (using Pebble driver)

grip server --driver=pebble

In another terminal, create the graph

grip create pc12

And load the file, using the RDF loader

grip rdf --gzip pc12 PathwayCommons12.All.BIOPAX.owl.gz -m "http://www.biopax.org/release/biopax-level3.owl#=" -m "http://pathwaycommons.org/pc12/#=pc12:"

Once the graph has been loaded into the database, you can view all of the different vertex and edge types in the graph:

grip list labels pc12

Or run an example query, such as count all of the pathways:

grip query pc12 'V().hasLabel("Pathway").count()'

Documentation

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There is no documentation for this package.

Source Files

Directories

Path Synopsis
benchmark
cmd
rdf
Code generated by protoc-gen-grpc-rest-direct.
Code generated by protoc-gen-grpc-rest-direct.
v8
kvi
Package server contains code for serving the Grip API.
Package server contains code for serving the Grip API.
rpc
Package version reports the Grip version.
Package version reports the Grip version.

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