searchPublications_and_MapAffil

Created: 2017-04-19 09:31:22

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This is a workflow for spatiotemporal analysis of literature indexed in PubMed.

The workflow takes an arbitrary Europe PMC search query, calls the Europe PMC Web service searchPublications and extracts the publication year and PubMed ID from the results. The first author affiliation is then geoparsed by the MapAffil Web server to get latitude and longitudes. The coordinates are then concatenated together with the publication year, to produce a single list of publication years, latitudes and longitudes.

The workflow also outputs the total number of hits of the search query.

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Workflow Components

Authors (1)

Titles (1)

Descriptions (1)

Dependencies (0)

Inputs (1)

Name	Description
Query	Europe PMC query string

Processors (1)

Name	Type	Description
searchPublications_and_MapAffil	workflow

Beanshells (2)

Name	Description	Inputs	Outputs
Build_Query	This build_query BeanShell constructs the Europe PMC search query for a single protein in UniProt.	nextCursorMark Query Iteration	queryString cursorMark Iteration
Build_URL_for_MapAffil		PMIDs	url

Outputs (2)

Name	Description
Coordinates
hitCount

Datalinks (3)

Source	Sink
Query	searchPublications_and_MapAffil:Query
searchPublications_and_MapAffil:Coordinates	Coordinates
searchPublications_and_MapAffil:hitCount	hitCount

Coordinations (0)

Information Workflow Type

Taverna 2

Information Uploader

Magnus Palmblad

Information License

All versions of this Workflow are licensed under:

Information Version 1 (of 1)

Information Credits (1)

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Magnus Palmblad

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Information Tags (5)

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Information Shared with Groups (1)

Bibliometrics and Scientometrics

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Information Statistics

1802 viewings

935 downloads

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searchPublications_and_MapAffil

Created by Magnus Palmblad on Wednesday 19 April 2017 09:31:18 (UTC)

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