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Items tagged with "user_interaction" (9)

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Workflows (9)

Taverna 1 Original Uploader Peter Li	selectworker (v1) Created: 25/03/08 @ 10:01:38 \| Last updated: 25/03/08 @ 10:23:34 Credits: Peter Li License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow shows how the selectData beanshell script can be used to select items from a given list for analysis by downstream processors. Use Control and left mouse click to select multiple items. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 2 \| Citations: 0 Viewed: 160 times \| Downloaded: 62 times Tags (2): beanshell \| user_interaction	View Download (v1)
Taverna 1 Original Uploader Peter Li	Identification of differential genes using t-tests by R (v2) Created: 15/04/08 @ 15:37:42 \| Last updated: 01/07/08 @ 17:21:18 Credits: Peter Li License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow starts by retrieving the names of microarray datasets from the Maxd database. The user has to select sets of control and test data for analysis using t-tests by R. A list of significant differentially expressed genes is then analysed using the Go Term Finder tool which generates a list of GO terms associated with the genes. A CSV file containing the list of significant genes is also generated. Rating: 5.0 / 5 (1 rating) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 1 Viewed: 449 times \| Downloaded: 153 times Tags (6): beanshell \| maxd \| microarray \| r \| systems biology \| user_interaction	View Download (v2)
Taverna 1 Original Uploader Hamish McWilliam	EBI WU-BLAST with program and database selection prompts. (v3) Created: 04/07/09 @ 11:39:54 \| Last updated: 06/12/10 @ 10:56:44 Credits: Hamish McWilliam Attributions: EBI_WU-BLAST License: Creative Commons Attribution 3.0 Unported License Run a BLAST analysis using the EBI's WSWUBlast service (see http://www.ebi.ac.uk/Tools/webservices/services/wublast). This workflow wraps the EBI_WU-BLAST workflow to provide a basic user interface which prompts for the required inputs: sequence, database, BLAST program and user e-mail. Other parameters (e.g. matrix, sort, gap penalties, etc.) are allowed to default. The values presented in the selection menus for the program and database are obtained from the service, using the provided me... Rating: 0.0 / 5 (0 ratings) \| Versions: 3 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 157 times \| Downloaded: 77 times Tags (6): bioinformatics \| BLAST \| ebi \| sequence similarity search \| user_interaction \| wu-blast	View Download (v3)
Taverna 1 Original Uploader Hamish McWilliam	EBI FASTA with prompts (v3) Created: 30/05/08 @ 23:53:16 \| Last updated: 06/12/10 @ 10:53:23 Credits: Hamish McWilliam Attributions: EBI_FASTA License: Creative Commons Attribution 3.0 Unported License Run a FASTA analysis using the EBI’s WSFasta service (see http://www.ebi.ac.uk/Tools/webservices/services/fasta). This workflow wraps the EBI_FASTA workflow to provide a basic user interface which prompts for the required inputs: sequence, database, FASTA program and user e-mail. Other parameters (e.g. matrix, gap penalties, etc.) are allowed to default. Note: the WSFasta service used by this workflow is deprecated as of 21st September 2010 and should not be used in any new developme... Rating: 0.0 / 5 (0 ratings) \| Versions: 3 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 83 times \| Downloaded: 41 times Tags (7): bioinformatics \| ebi \| FASTA \| sequence similarity search \| smith-waterman \| ssearch \| user_interaction	View Download (v3)
Taverna 1 Original Uploader Hamish McWilliam	EBI_NCBI_BLAST_with_prompts (v1) Created: 31/05/08 @ 08:40:29 \| Last updated: 06/12/10 @ 10:55:09 Credits: Hamish McWilliam Attributions: EBI_NCBI_BLAST License: Creative Commons Attribution 3.0 Unported License Run a BLAST analysis using the EBI’s WSNCBIBlast service (see http://www.ebi.ac.uk/Tools/webservices/services/ncbiblast). This workflow wraps the EBI_NCBI_BLAST workflow to provide a basic user interface which prompts for the required inputs: sequence, database, BLAST program and user e-mail. Other parameters (e.g. matrix, sort, gap penalties, etc.) are allowed to default. Note: the WSNCBIBlast service used by this workflow is deprecated as of 21st September 2010 and should not be use... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 103 times \| Downloaded: 68 times Tags (7): bioinformatics \| BLAST \| blastall \| ebi \| ncbi blast \| sequence similarity search \| user_interaction	View Download (v1)
Taverna 1 Original Uploader Hamish McWilliam	EBI_InterProScan_with_prompts (v1) Created: 31/05/08 @ 11:40:34 \| Last updated: 01/04/11 @ 08:57:45 Credits: Hamish McWilliam Attributions: EBI_InterProScan License: Creative Commons Attribution 3.0 Unported License Note: the WSInterProScan web service used by this workflow is no longer available haveing been replaced by the EMBL-EBI's InterProScan (REST) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_rest) and InterProScan (SOAP) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_soap) web services. Thus the workflow described here no longer works, see the alternative workflows for the InterProScan (SOAP) service for workflows which use the new services. Run an InterProScan anal... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 82 times \| Downloaded: 48 times Tags (7): bioinformatics \| ebi \| go terms \| interpro \| interproscan \| protein annotation \| user_interaction	View Download (v1)
Taverna 1 Original Uploader Peter Li	Identification of differential genes using the LIMMA Bioconductor package within R (v1) Created: 02/07/08 @ 11:24:12 \| Last updated: 02/07/08 @ 11:28:21 Credits: Peter Li License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow starts by retrieving the names of microarray datasets from the Maxd database. The user has to select sets of control and test data which are then analysed by the LIMMA Bioconductor package in an R script. This produces a list of significant differentially expressed genes which is then analysed using the Go Term Finder tool to generate a PDF report of the common GO terms associated with the genes. A CSV file containing the list of sign... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 561 times \| Downloaded: 219 times Tags (6): bioconductor \| limma \| maxd \| microarray \| r \| user_interaction	View Download (v1)
Taverna 2 Original Uploader Peter Li	Copasi time simulation of SBML model (v1) Created: 26/03/10 @ 17:23:25 Credits: Peter Li License: Creative Commons Attribution-Share Alike 3.0 Unported License Uses the synchronous Copasi time simulation web service to predict the concentrations of species over a time period. The results from Copasi are provided in SBRML format which is visualised as a graph using an R script. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 75 times \| Downloaded: 35 times Tags (6): image \| model \| model_simulation \| sbml \| systems_biology \| user_interaction	View Download (v1)
Taverna 2 Original Uploader Peter Li	Select items from list (v1) Created: 30/03/10 @ 14:04:45 Credits: Peter Li License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow pops up a window containing an input list of strings. The user is invited to select one or more strings for downstream processing. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 49 times \| Downloaded: 30 times Tags (3): beanshell \| list \| user_interaction	View Download (v1)