reactome/ReactomeGSA.report

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reactome/ReactomeGSA.report

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Report generating features for the ReactomeGSA Pathway Analysis tool

reactome2py

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

ReactomeGSA

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

graph-core

Models the Reactome knowledgebase into a interconnected graph

content-service

The new Reactome REST API to access the data

container

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

ReactomeGSA-tutorials

Tutorials on how to use the ReactomeGSA R package.

Jupyter Notebook

graph-importer

Converts the Reactome knowledgebase into a interconnected graph

ReactomeGraph4R

R package for interfacing with a Reactome Graph Database

descartes_rpa

interaction-exporter

Exports molecular interactions inferred from Reactome content

Release

Code and website structure for a release server

Website

Contains the code and configuration for the website

gsa-backend

Backend code of the Kubernetes based ReactomeGSA Analysis System

analysis-service

A RESTful API to access pathway analysis tools

ReactomeContentService4R

R Interface for Reactome data

BCC-2020

Repository containing supplemental files and information for the 'How to use Reactome data, tools and web service' presentation at BCC 2020.

reactome_gnn

CuratorTool

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

analysis-core

Pathway enrichment and expression analysis as well as species comparison tool

biomodels-mapper

Mapping BioModels to Reactome using analysis results

fi_network_build

This project is used to build the Reactome functional interaction network.

elk-setup

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

data-export

Creates the files to be placed in the download section

release-qa

A collection of tools to perform QA checks during the Release process.

event-pdf

Generates the Reactome book

ReactomeGSA.data

Companion data package for the ReactomeGSA R package

statistics-generator

Cypher queries to generate automatically release statistics

gsa-frontend

release-qa-pipeline

Consolidates all Reactome release QA checks.

data-content

browser-curator

A tool for visualising and interacting with pathways data

release-data-exporter

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

maven-project-template

Standardized template for a Reactome maven project

RESTfulAPI

Reactome content web-service

analysis-report

qa-server

Automated curation QA checks

report-logger

Centralises different events across various services for periodic report

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)

data-release-pipeline

The next generation of the Reactome data release pipeline.

search-core

reactome-reach-integration

disease-digester

To represent the disease-gene binary relationship with a REACTOME overlay

rxn-classifier

A tool to help curators with the reactions classification

release-go-update

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

logic-network-generator

graph-qa

Used to report possible data inconsistencies