Difference between revisions of "PubMed Retrieval"

Revision as of 15:04, 4 January 2012

About PubMed Retrieval Plug-in

This plugin was developed in collaboration with the SING group at University of Vigo - Spain.

Information Retrieval plug-in divided and two main points:

• Publication searching in PubMed, with the combination of keywords and specific fields. The result is a set of publication what contains information about title, abstract, journal. These publications are organized in queries
• Publication Retrieval that try get PDF file for a Publication indexed for PMID.There are limitation for crawling article (free access only).

For structuring this plug-in exist was defined Queries, a publication Set. This publications can be classified in a Query ( Publication Query Relevance ). This step can be important for example in corpus creation or in learning data for automatic classification systems.

User HowTOs

MVC AIBench Model:

Data-types:

PublicationManager: Plug-in Main Data-type that contains information about all PubMed search already done. Contain information about proxy and database given by configuration file and directory for publications PDF files.

QueryInformationRetrievalExtension: Represent a Query. Contain information about database ID, date, keywords, organism, matching publications, available abstracts and other generic query properties.

Operations:

AddFileToPublicationManagerOperation: Manually add a PDFfile for publication.

AddPublicationToQueryOperation: Add a new publication to QueryInformationRetrievalExtension.

ExitOperation: Publication Manager exit operation.

InitReferenceManager: Initialize PublicationManager plug-in.

JournalRetrivalListDocs: Operation that given a list PMID try gets PDF files.

PubmedSearchOperation: Operation for Search in PubMed given the query details.

SelectRelevance: Change document relevance for query.

UpdateQueryOperation: Update QueryInformationRetrievalExtension (updates the result of PubMed search in time).

Views:

PublicationManagerView: PublicationManager View that contains a visualizer off all queries presents in Publication Manager and permits have some filters.

QueryRelevanceView: QueryInformationRetrievalExtension View that permits viewing documents in a query whit your relevance.

QueryView: QueryInformationRetrievalExtension View that permits viewing documents in a query an permits some search steps.