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Parts 4-6

Workflow Entry: Parts 4-6

Created at: 18/03/10 @ 12:39:55 Last updated: 18/03/10 @ 12:40:43

Version 1 (of 1)

Version created on: 18/03/10 @ 12:39:55 by: White duncan100 | Revision comments Expand

Last edited on: 18/03/10 @ 12:40:46 by: White duncan100

Title: Parts 4-6

Type: Taverna 2

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Workflow Components

Authors (0)

Titles (1)

Descriptions (0)

Inputs (3)

Name	Description
known_drug_targets_list
input_sequences
drug_target_minimum_similarity

Processors (8)

Name	Type	Description
6_Kegg_pathway_diagrams_with_enzymes_coloured_on_path_diagram	workflow
4_5_Find_potential_drug_targets	workflow
pass_protein_id_if_similar_to_a_drug_target	beanshell
fg_color_value	stringconstant
bg_color_value	stringconstant
Concatenate_two_strings	localworker
Namespace	stringconstant
convert_to_kegg_id	workflow

Beanshells (6)

Name	Inputs	Outputs
pass_protein_id_if_similar_to_a_drug_target	protein_desc targets	protein_id_out
insert_query_seq	fasta MergeString	result
extract_number_sequences	insertSeq	result
Extract_Seq_Description	Sequences	result
Alignment_thresholder	stringlist regex group minscore	filteredlist
addIDtotarget	identifiers targets regex group	filteredlist

Outputs (5)

Name	Description
kegg_image_url
potential_drug_targets
alignments
image_alignments
kegg_image

Datalinks (17)

Source	Sink
fg_color_value:value	6_Kegg_pathway_diagrams_with_enzymes_coloured_on_path_diagram:fg_color
bg_color_value:value	6_Kegg_pathway_diagrams_with_enzymes_coloured_on_path_diagram:bg_color
convert_to_kegg_id:kegg_id	6_Kegg_pathway_diagrams_with_enzymes_coloured_on_path_diagram:gene_ids
known_drug_targets_list	4_5_Find_potential_drug_targets:drug_list
input_sequences	4_5_Find_potential_drug_targets:Input_Sequences
drug_target_minimum_similarity	4_5_Find_potential_drug_targets:similarity_threshold
4_5_Find_potential_drug_targets:Protein_Desc	pass_protein_id_if_similar_to_a_drug_target:protein_desc
4_5_Find_potential_drug_targets:Targets	pass_protein_id_if_similar_to_a_drug_target:targets
4_5_Find_potential_drug_targets:Targets	Concatenate_two_strings:string2
4_5_Find_potential_drug_targets:Protein_Desc	Concatenate_two_strings:string1
Namespace:value	convert_to_kegg_id:namespace
pass_protein_id_if_similar_to_a_drug_target:protein_id_out	convert_to_kegg_id:id
6_Kegg_pathway_diagrams_with_enzymes_coloured_on_path_diagram:keggimageurl	kegg_image_url
Concatenate_two_strings:output	potential_drug_targets
4_5_Find_potential_drug_targets:Alignment	alignments
4_5_Find_potential_drug_targets:Image_Alignment	image_alignments
6_Kegg_pathway_diagrams_with_enzymes_coloured_on_path_diagram:coloured_images	kegg_image

Coordinations (0)

Information Workflow Type

Taverna 2

Information Original Uploader

White duncan100

Information License

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Information Credits (1)

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White duncan100

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Information Shared with Groups (1)

Steyn Pharmaceuticals Ltd Unplanned Genetic Experiments (SPLUGE)

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No one

Information Statistics

281 viewings

400 downloads

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Citations (0)

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Version History

Earliest Version:
[1] - Parts 4-6

Created on: Thursday 18 March 2010 @ 12:39:55 (GMT)

Created by: White duncan100

Last edited on: Thursday 18 March 2010 @ 12:40:46 (GMT)

Last edited by: White duncan100

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Taverna 2

Original Uploader

Katy Wolstencroft

NCBI Gi to Kegg Pathway Descriptions (v2)

Created: 12/01/12 @ 09:46:31 | Last updated: 12/01/12 @ 14:54:37

Credits: Katy Wolstencroft

Attributions: NCBI Gi to Kegg Pathways

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This workflow accepts a list of genbank gene identifiers and returns descriptions of gene functions and a list of all pathways each gene is involved in, according to the KEGG database.

Rating: 0.0 / 5 (0 ratings) | Versions: 2 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 6 times | Downloaded: 8 times

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