reactome/release-orthoinference

Data-release-pipeline: Orthology projection of human reactions and pathways to non-human species

Language: Java - Size: 7.61 MB - Last synced at: 3 days ago - Pushed at: 3 days ago - Stars: 0 - Forks: 0

reactome/literature-databases

Size: 336 KB - Last synced at: 3 days ago - Pushed at: 3 days ago - Stars: 0 - Forks: 0

reactome/Website

Contains the code and configuration for the website

Language: PHP - Size: 515 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 5 - Forks: 2

reactome/BioPAX3Exporter

Export of BioPAX Level 3 from graph database

Language: Java - Size: 39.1 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 0 - Forks: 0

reactome/statistics-generator

Cypher queries to generate automatically release statistics

Language: R - Size: 671 KB - Last synced at: 13 days ago - Pushed at: 13 days ago - Stars: 1 - Forks: 0

reactome/release-download-directory

Data-release-pipeline: Generation of files for the Reactome website download directory

Language: Java - Size: 7.55 MB - Last synced at: 18 days ago - Pushed at: 18 days ago - Stars: 0 - Forks: 1

reactome/search-indexer

Language: Java - Size: 481 KB - Last synced at: 25 days ago - Pushed at: 25 days ago - Stars: 0 - Forks: 3

reactome/fireworks-layout

Custom radial layout algorithm to visualise Reactome pathways in a space-filling graph

Language: Java - Size: 1.75 MB - Last synced at: 26 days ago - Pushed at: 26 days ago - Stars: 1 - Forks: 3

reactome/analysis-report

Language: Java - Size: 39.8 MB - Last synced at: 26 days ago - Pushed at: 26 days ago - Stars: 1 - Forks: 2

reactome/server-java-utils

Server side utilities shared across different projects

Language: Java - Size: 54.7 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 2

reactome/interactors-core

Language: Java - Size: 10.3 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 2

reactome/search-core

Language: Java - Size: 335 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 2

reactome/reaction-exporter

Language: Java - Size: 12.8 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 2

reactome/diagram-reader

Language: Java - Size: 119 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 1

reactome/graph-qa

Used to report possible data inconsistencies

Language: Java - Size: 134 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 1

reactome/interaction-exporter

Exports molecular interactions inferred from Reactome content

Language: Java - Size: 4.51 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 5 - Forks: 1

reactome/data-export

Creates the files to be placed in the download section

Language: Java - Size: 223 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 2 - Forks: 2

reactome/diagram-converter

Generates a set of JSON files to be consumed by the Diagram Viewer

Language: Java - Size: 1.7 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 3

reactome/analysis-core

Pathway enrichment and expression analysis as well as species comparison tool

Language: Java - Size: 12.6 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 3 - Forks: 6

reactome/sbml-exporter

Language: Java - Size: 439 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 1

reactome/fireworks-exporter

Exports the pathways overview as raster images

Language: Java - Size: 52 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 2

reactome/graph-importer

Converts the Reactome knowledgebase into a interconnected graph

Language: Java - Size: 188 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 7 - Forks: 4

reactome/event-pdf

Generates the Reactome book

Language: Java - Size: 10.1 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 1

reactome/graph-core

Models the Reactome knowledgebase into a interconnected graph

Language: Java - Size: 1.89 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 18 - Forks: 7

reactome/reactome_chatbot

This is Reactomes chatbot to its database and search index

Language: Python - Size: 16.8 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 0

reactome/diagram-exporter

Exporter of the diagram layout to different formats (pptx, svg, png, gif, jpg, sbgn)

Language: Java - Size: 59.8 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 3

reactome/release-jenkins-utils

Data-release-pipeline: Utilities repository that contains files for initializing Release via Jenkins and general-use scripts used in Release

Language: Groovy - Size: 8.16 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 1

reactome/ReactomeGSA

R client for the REACTOME Analysis Service for comparative multi-omics gene set analysis

Language: R - Size: 1020 KB - Last synced at: 30 days ago - Pushed at: 5 months ago - Stars: 22 - Forks: 4

reactome/reactome_galaxy

This is for running the analysis service

Language: Kotlin - Size: 793 KB - Last synced at: 10 days ago - Pushed at: 11 days ago - Stars: 0 - Forks: 0

reactome/gsa-frontend

Language: TypeScript - Size: 2.18 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 1 - Forks: 1

reactome/doi-suggester

Suggests which entities might need a DOI

Language: Java - Size: 92.8 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

reactome/pwp-browser

A tool for visualising and interacting with pathways data

Language: Java - Size: 4.25 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 10 - Forks: 7

reactome/pwp-model

Data model shared accross the widgets and browser

Language: Java - Size: 293 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 1 - Forks: 4

reactome/release-update-dois

Data-release-pipeline: Updates DOIs of pathways that were updated significantly between releases (these pathways will be tagged as needing a value in their doi attribute)

Language: Java - Size: 7.39 MB - Last synced at: 24 days ago - Pushed at: 24 days ago - Stars: 1 - Forks: 0

reactome/release-update-stable-ids

Data-release-pipeline: Updates stable identifiers of manually curated instances

Language: Java - Size: 7.38 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

reactome/release-ortho-stable-id-history

Language: Java - Size: 50.8 KB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0

reactome/analysis-service

A RESTful API to access pathway analysis tools

Language: Java - Size: 3.37 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 4 - Forks: 3

reactome/graph-add-links

Language: Java - Size: 332 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

reactome/release-verifier-lib

A library of common functions for verifying release steps have run successfully

Language: Java - Size: 13.7 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

reactome/release-biomodels

Data-release-pipeline: Insertion of BioModels identifiers cross-references (data generated by https://github.com/reactome/biomodels-mapper) for Pathway instances

Language: Java - Size: 206 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 1

reactome/CuratorTool

The Reactome Java API for the relational database and the Curator Tool

Language: Java - Size: 45.7 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 3 - Forks: 7

reactome/curation-statistics

Language: Java - Size: 20.5 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

reactome/reactome2py

python client for reactome content, analysis, and human functional protein interactions (FI) services api calls.

Language: Python - Size: 337 KB - Last synced at: 20 days ago - Pushed at: about 1 year ago - Stars: 28 - Forks: 9

reactome/release_gocam

This pipeline generates go-cam ttl files from biopax and validates them

Language: Shell - Size: 28.3 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

reactome/release-data-exporter

Data-release-pipeline: Data exports for submission to NCBI, UCSC, and Europe PMC

Language: Java - Size: 377 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 1 - Forks: 0

reactome/PathwayBrowser

Language: TypeScript - Size: 47.2 MB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 0 - Forks: 0

reactome/biomodels-mapper

Mapping BioModels to Reactome using analysis results

Language: Java - Size: 10.2 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 3 - Forks: 0

reactome/content-service

The new Reactome REST API to access the data

Language: Java - Size: 5.49 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 9 - Forks: 5

reactome/pwp-diagram

GWT widget to visualise Reactome pathways

Language: Java - Size: 4.4 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 5 - Forks: 7

reactome/pwp-analysis-client

Language: Java - Size: 91.8 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 2 - Forks: 2

reactome/pwp-carrousel

Language: Java - Size: 522 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 1

reactome/pwp-infinite-scroller

Lists infinite scroll capability

Language: Java - Size: 122 KB - Last synced at: 2 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

reactome/pwp-quadtree

GWT basic implementation of a QuadTree

Language: Java - Size: 39.1 KB - Last synced at: 2 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

reactome/pwp-chebi

GWT widget to show molecules structure from ChEBI

Language: Java - Size: 77.1 KB - Last synced at: 2 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

reactome/pwp-gxa

GWT wrapper for the Gene Expression Atlas widget

Language: Java - Size: 177 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

reactome/pwp-pdbe

GWT widget to show molecules structure from pdbe

Language: Java - Size: 180 KB - Last synced at: 2 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

reactome/pwp-rhea

Language: Java - Size: 46.9 KB - Last synced at: 2 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

reactome/pwp-diagram-js

A exporter of the diagram viewer to an ordinary Javascript API

Language: Java - Size: 90.8 KB - Last synced at: 3 days ago - Pushed at: 3 months ago - Stars: 0 - Forks: 4

reactome/pwp-fireworks-js

Language: Java - Size: 58.6 KB - Last synced at: 2 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 2

reactome/pwp-fireworks

Language: Java - Size: 4.71 MB - Last synced at: 2 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 4

reactome/reactome_gnn

Language: Python - Size: 4.01 MB - Last synced at: 6 months ago - Pushed at: over 3 years ago - Stars: 3 - Forks: 2

reactome/data-content

Language: Java - Size: 1.11 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 1 - Forks: 2

reactome/add-links-checker

Checks add links reference database referrer count between release databases

Language: Java - Size: 11.7 KB - Last synced at: 6 months ago - Pushed at: 7 months ago - Stars: 0 - Forks: 0

reactome/popularpathways

Language: Java - Size: 1.36 MB - Last synced at: 6 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0

reactome/restfulapi_mini

Language: Java - Size: 534 KB - Last synced at: 6 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0

reactome/experiment-digester

Language: Java - Size: 58.6 KB - Last synced at: 6 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0

reactome/report-logger

Centralises different events across various services for periodic report

Language: Java - Size: 133 KB - Last synced at: 6 months ago - Pushed at: 8 months ago - Stars: 1 - Forks: 0

reactome/data-release-pipeline 📦

The next generation of the Reactome data release pipeline.

Language: Java - Size: 8.4 MB - Last synced at: 6 months ago - Pushed at: 11 months ago - Stars: 1 - Forks: 1

reactome/RESTfulAPI

Reactome content web-service

Language: Java - Size: 95.1 MB - Last synced at: 6 months ago - Pushed at: 9 months ago - Stars: 1 - Forks: 2

reactome/Pathway-Exchange

Pathway Exchange Code Repository

Language: Java - Size: 55 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 1

reactome/release-go-update

Data-release-pipeline: Synchronization of gk_central GO instances with Gene Ontology (http://geneontology.org/)

Language: Java - Size: 7.45 MB - Last synced at: 6 months ago - Pushed at: 10 months ago - Stars: 1 - Forks: 0

reactome/release-common-lib

Data-release-pipeline: Common code for Reactome data-release-pipeline steps

Language: Java - Size: 8 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

reactome/container

:construction: Repository for files for running a Reactome production-like environment inside a docker container. Currently, this project's status is "Work-In-Progress". :construction:

Language: Perl - Size: 12.9 MB - Last synced at: 6 months ago - Pushed at: almost 3 years ago - Stars: 9 - Forks: 4

reactome/release-orthopairs

Data-release-pipeline: Retrieval of homology data (human to other species) from PANTHER (http://www.pantherdb.org/)

Language: Java - Size: 7.41 MB - Last synced at: 2 days ago - Pushed at: 2 days ago - Stars: 0 - Forks: 0

reactome/reactome-schemas

Language: Java - Size: 994 KB - Last synced at: 5 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0

reactome/logic-network-generator

Language: Python - Size: 173 KB - Last synced at: 5 months ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0

reactome/ngx-reactome-base

Size: 705 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

reactome/release-uniprot-update

Language: Java - Size: 62.5 KB - Last synced at: 6 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0

reactome/release-chebi-update

Data-release-pipeline: Synchronization of gk_central Reference Molecule instances with ChEBI (https://www.ebi.ac.uk/chebi/)

Language: Java - Size: 7.47 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

reactome/release-cosmic-update

Code for updating COSMIC identifiers.

Language: Java - Size: 155 KB - Last synced at: 6 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 1

reactome/gsa-backend

Backend code of the Kubernetes based ReactomeGSA Analysis System

Language: Python - Size: 36.1 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 1

reactome/elk-setup-v2

Language: Java - Size: 193 KB - Last synced at: 6 months ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

reactome/ReactomeContentService4R

R Interface for Reactome data

Language: R - Size: 1.27 MB - Last synced at: about 1 year ago - Pushed at: almost 2 years ago - Stars: 3 - Forks: 2

reactome/ReactomeGSA.report

Report generating features for the ReactomeGSA Pathway Analysis tool

Language: R - Size: 18.6 KB - Last synced at: 6 months ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0

reactome/interaction-importer

This is for importing Intact data into the neo4j database

Language: Java - Size: 183 KB - Last synced at: 6 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0

reactome/elk-setup 📦

Setup to use when processing logs with ElasticSearch, Logstash, & Kibana

Language: Java - Size: 453 KB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 2

reactome/slicingTool 📦

Not production ready

Language: Perl - Size: 3.61 MB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 1

reactome/Release 📦

Code and website structure for a release server

Language: PHP - Size: 631 MB - Last synced at: 6 months ago - Pushed at: about 3 years ago - Stars: 5 - Forks: 6

reactome/pathway-log-analysis 📦

Language: Perl - Size: 2.45 MB - Last synced at: 6 months ago - Pushed at: about 7 years ago - Stars: 0 - Forks: 0

reactome/pathwayBot Fork of fataltes/pathwayBot

A chatbot specialized in pathway-related questions

Size: 1.28 MB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

reactome/reactome-log-manager Fork of elkninja/elastic-stack-docker-part-one

Elastic Stack on Docker-Compose

Size: 18.6 KB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

reactome/browser-curator

A tool for visualising and interacting with pathways data

Language: Java - Size: 2.8 MB - Last synced at: 6 months ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 1

reactome/apicuron-exporter

Language: Java - Size: 438 KB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

reactome/ReactomeGSA.data

Companion data package for the ReactomeGSA R package

Language: R - Size: 35.7 MB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0

reactome/ReactomeGraph4R

R package for interfacing with a Reactome Graph Database

Language: R - Size: 1.04 MB - Last synced at: 5 days ago - Pushed at: almost 2 years ago - Stars: 6 - Forks: 2

reactome/descartes_rpa

Language: Python - Size: 20.9 MB - Last synced at: about 3 hours ago - Pushed at: over 2 years ago - Stars: 6 - Forks: 0

reactome/add-links

This is the AddLinks component of the Release system

Language: Java - Size: 2.03 MB - Last synced at: 6 months ago - Pushed at: 7 months ago - Stars: 0 - Forks: 1

reactome/uniprot-query

Language: Java - Size: 14.6 KB - Last synced at: 6 months ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

reactome/reactome_neo4j_env Fork of alliance-genome/agr_neo4j_env

Provides docker environment for our Neo4j databases

Language: Dockerfile - Size: 49.7 MB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

reactome/reactome-parent

Size: 27.3 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0