1. Home
  2. Workflows
  3. Perfrom a text based search through PubMed

Perfrom a text based search through PubMed

Created: 2010-07-05 13:03:35      Last updated: 2010-07-05 13:03:37

This workflow takes in a number of search terms in which to perform a search over the PubMed literature database. These search terms may be input as if entered in the web based version of PubMed. The output from this workflow is a list of PubMed identifiers in xml based format

Information Preview

Medium

Download as scalable diagram (SVG)

Information Run

Run this Workflow in the Taverna Workbench...

Option 1:

Copy and paste this link into File > 'Open workflow location...'
http://www.myexperiment.org/workflows/1374/download?version=1
[ More InfoExpand ]


Information Workflow Components

Information Authors (1)
Information Titles (1)
Information Descriptions (1)
Information Dependencies (0)
Inputs (1)
Processors (2)
Beanshells (0)
Outputs (1)
Datalinks (3)
Coordinations (0)

Information Workflow Type

Taverna 2

Information Uploader

4399?size=60x60 Gb Paul Fisher

Information License

All versions of this Workflow are licensed under:

Information Version 1 (of 1)

Information Credits (1)

(People/Groups)

Information Attributions (0)

(Workflows/Files)

None

Information Tags (5)

Log in to add Tags

Information Shared with Groups (0)

None

Information Featured In Packs (0)

None

Log in to add to one of your Packs

Information Attributed By (0)

(Workflows/Files)

None

Information Favourited By (0)

No one

Information Statistics

1835 viewings

1591 downloads

[ see breakdown ]

More
 

Citations (0)

None


Version History

In chronological order:

  1. Perfrom a text based search through PubMed

    Created by Paul Fisher on Monday 05 July 2010 13:03:35 (UTC)



Reviews Reviews (0)

No reviews yet

Be the first to review!



Comments Comments (0)

No comments yet

Log in to make a comment




Workflow Other workflows that use similar services (6)

Only the first 2 workflows that use similar services are shown. View all workflows that use these services.


Taverna 2
Uploader
4399?size=60x60 Gb Paul Fisher

Workflow Gene to Pubmed (3)

Thumb
This workflow takes in a list of gene names and searches the PubMed database for corresponding articles. Any matches to the genes are then retrieved (abstracts only). These abstracts are then returned to the user.

Created: 2010-07-05 | Last updated: 2011-01-26

Credits: User Paul Fisher

Taverna 2
Uploader
Avatar Yoshinobu Kano

Workflow A template example workflow using U-Compar... (2)

Thumb
An example workflow using the U-Compare text mining system inside embedded. Users can easily make their own workflow with U-Compare reusing this workflow. This workflow retrieves abstract texts from Pubmed with user specified query, inputs the texts to U-Compare, interprets the output of U-Compare. You have to download and store the UIMA CPE XML descriptor file (StdinPPIExtraction-CPE-EventMine.xml) to run the default setting, which runs a event extraction text mining workflow by U-Compare. S...

Created: 2010-07-05 | Last updated: 2010-09-02

Credits: User Yoshinobu Kano

Funded by: BioVeL, EPSRC, JISC, Microsoft

Affiliates: myGrid, Taverna, BioCatalogue
About | Privacy | Publications | Contact / Feedback | Mailing List
Icons: Silk icon set 1.3

Copyright © 2007 – 2018 The University of Manchester and University of Southampton