Parse web pages for gaggle data and interact with other Gaggle Geese

Latest Version

Version

1.1.0.5

Update

May 28, 2015

Size

595KiB

Developer

Gaggle Chrome Goose Extension

ChromeGoose is a Chrome browser plugin for integration of bioinformatics analysis scripts, visualization tools and desktop and web resources by enabling seamless data exchange between all the components.

Analysis of the most biological data types require different desktop analysis software such as Cytoscape, MeV, R, web resources such as NCBI Entrez, EMBL String and custom scripts for manipulating, analyzing and visualizing the data. ChromeGoose provides a unified framework for leveraging the power of all these components by connecting them through well-define data-types. These data types include NameList, Matrix, Tuple and Network that were defined previously by the Gaggle framework. Various desktop analysis packages, web resources and custom scripts are easily plugged into ChromeGoose architecture and all data incompatibility issues are avoided.

Current implementation of the ChromeGoose integrates connectivity between Chrome, Cytoscape, MeV and R. In addition based on the OpenCPU package, any R scripts can be plugged into this framework with minimal effort. We have already implemented three R scripts for custom analysis of regulatory network models including data plotting, filtering and performing enrichment analysis.

ChromeGoose is developed by the Baliga Lab at Institute for Systems Biology.

Source Manifest.json

{"update_url": "https://clients2.google.com/service/update2/crx", "manifest_version": 2, "name": "Gaggle Chrome Goose", "description": "Parse web pages for gaggle data and interact with other Gaggle Geese", "version": "1.1.0.5", "permissions": [ "storage", "tabs", "http://*/*", "https://*/*" ], "content_security_policy": "script-src 'self' https://ssl.google-analytics.com; object-src 'self'", "web_accessible_resources": ["jquery-1.11.0.min.js", "jquery-ui-1.10.4.js", "opencpu-0.4.js", "message.js", "util.js", "handlers/handler.js", "handlers/david.js", "handlers/kegg.js", "handlers/pipe2SearchHandle.js", "handlers/stamp.js", "handlers/MRMAtlasGoose.js", "handlers/maggie.js", "handlers/rscriptwrapper.js", "handlers/genesetenrichment.js", "handlers/plotexpression.js"], "background": { "persistent": true, "page": "background.html" }, "content_scripts": [ { "matches": ["http://*/*", "https://*/*"], "js": ["jquery-1.11.0.min.js","jquery-ui-1.10.4.js", "opencpu-0.4.js", "message.js", "util.js", "ufmt.js", "data/gaggle_data.js", "data/namelist.js", "data/datamatrix.js", "data/cluster.js", "handlers/handler.js", "handlers/gaggleMicroformat.js", "handlers/gaggleXml.js", "handlers/gaggleMicroformatHandler.js", "handlers/pipe2Goose.js", "handlers/metlin.js", "handlers/sgd.js", "handlers/emblstring.js", "handlers/webhandler.js", "gaggle.js"], "css" : ["jquery-ui-1.10.4.css"], "run_at": "document_idle", "all_frames": true }, { "matches": ["http://david.abcc.ncifcrf.gov/*"], "js": ["jquery-1.11.0.min.js","jquery-ui-1.10.4.js", "message.js", "util.js", "ufmt.js", "handlers/handler.js", "handlers/david.js", "handlers/webhandler.js", "data/gaggle_data.js", "data/namelist.js", "data/datamatrix.js", "data/cluster.js", "gaggle.js"], "all_frames": true }, { "matches": ["http://string.embl.de/*"], "js": ["jquery-1.11.0.min.js","jquery-ui-1.10.4.js", "message.js", "util.js", "ufmt.js", "handlers/handler.js", "handlers/emblstring.js", "handlers/webhandler.js", "data/gaggle_data.js", "data/namelist.js", "data/datamatrix.js", "data/cluster.js", "gaggle.js"], "all_frames": true }, { "matches": ["http://maggie.systemsbiology.net/*"], "js": ["jquery-1.11.0.min.js","jquery-ui-1.10.4.js", "message.js", "util.js", "ufmt.js", "handlers/handler.js", "handlers/maggie.js", "handlers/webhandler.js", "data/gaggle_data.js", "data/namelist.js", "data/datamatrix.js", "data/cluster.js", "gaggle.js"], "all_frames": true }, { "matches": ["http://www.genome.jp/*"], "js": ["jquery-1.11.0.min.js","jquery-ui-1.10.4.js", "message.js", "util.js", "ufmt.js", "handlers/handler.js", "handlers/kegg.js", "handlers/webhandler.js", "data/gaggle_data.js", "data/namelist.js", "data/datamatrix.js", "data/cluster.js", "gaggle.js"], "all_frames": true }, { "matches": ["http://networks.systemsbiology.net/*"], "js": ["handlers/networkportalHandler.js"], "all_frames": true } ], "browser_action": { "default_title": "Gaggle Chrome Goose", "default_icon": {"19": "img/chromegoose-logo19px.png", "38": "img/chromegoose-logo38px.png"}, "default_popup": "browser_popup.html" }}

Download CRX(595KiB)