Genome variant to Protein change
Created: 2012-07-27 11:26:11
Last updated: 2012-10-29 10:35:52
Reports protein change, given a genomic variant, using mutalyzer
Preview
Run
Run this Workflow in the Taverna Workbench...
Workflow Components
Authors (1)
Mike Cornell and Helen Hulme |
Titles (1)
Genome variant to Protein change |
Descriptions (1)
Reports protein change, given a genomic variant, using mutalyzer |
Dependencies (0)
Inputs (1)
Name |
Description |
numberConversion_2_variant |
Genomic variant
|
Processors (12)
Name |
Type |
Description |
numberConversion |
wsdl |
Wsdlhttps://mutalyzer.nl/services/?wsdlWsdl OperationnumberConversion |
numberConversion_2 |
xmlsplitter |
|
numberConversionResponse |
xmlsplitter |
|
build_value |
stringconstant |
Valuehg19 |
getGeneName |
wsdl |
Wsdlhttps://mutalyzer.nl/services/?wsdlWsdl OperationgetGeneName |
getGeneName_2 |
xmlsplitter |
|
getGeneNameResponse |
xmlsplitter |
|
Beanshell |
beanshell |
Scriptint i = variant_HGVS.indexOf(":");
transcript_ref=variant_HGVS.substring(0,i);
variant_pos= variant_HGVS.substring(i+1); |
runMutalyzer |
wsdl |
Wsdlhttps://mutalyzer.nl/services/?wsdlWsdl OperationrunMutalyzer |
runMutalyzerResponse |
xmlsplitter |
|
runMutalyzerResponse_runMutalyzerResult |
xmlsplitter |
|
runMutalyzer_2 |
xmlsplitter |
|
Beanshells (1)
Name |
Description |
Inputs |
Outputs |
Beanshell |
|
variant_HGVS
|
transcript_ref
variant_pos
|
Outputs (5)
Name |
Description |
numberConversionResponse_numberConversionResult |
|
getGeneNameResponse_getGeneNameResult |
|
transcript_ref |
|
variant_pos |
|
proteinDescriptions |
|
Datalinks (18)
Source |
Sink |
numberConversion_2:output |
numberConversion:numberConversion |
build_value:value |
numberConversion_2:build |
numberConversion_2_variant |
numberConversion_2:variant |
numberConversion:numberConversionResponse |
numberConversionResponse:input |
getGeneName_2:output |
getGeneName:getGeneName |
build_value:value |
getGeneName_2:build |
Beanshell:transcript_ref |
getGeneName_2:accno |
getGeneName:getGeneNameResponse |
getGeneNameResponse:input |
numberConversionResponse:numberConversionResult |
Beanshell:variant_HGVS |
runMutalyzer_2:output |
runMutalyzer:runMutalyzer |
runMutalyzer:runMutalyzerResponse |
runMutalyzerResponse:input |
runMutalyzerResponse:runMutalyzerResult |
runMutalyzerResponse_runMutalyzerResult:input |
numberConversionResponse:numberConversionResult |
runMutalyzer_2:variant |
numberConversionResponse:numberConversionResult |
numberConversionResponse_numberConversionResult |
getGeneNameResponse:getGeneNameResult |
getGeneNameResponse_getGeneNameResult |
Beanshell:transcript_ref |
transcript_ref |
Beanshell:variant_pos |
variant_pos |
runMutalyzerResponse_runMutalyzerResult:proteinDescriptions |
proteinDescriptions |
Uploader
License
All versions of this Workflow are
licensed under:
Version 1
(of 1)
Credits (1)
(People/Groups)
Attributions (0)
(Workflows/Files)
None
Shared with Groups (1)
Featured In Packs (0)
None
Log in to add to one of your Packs
Attributed By (0)
(Workflows/Files)
None
Favourited By (1)
Statistics
Other workflows that use similar services
(0)
There are no workflows in myExperiment that use similar services to this Workflow.
Comments (0)
No comments yet
Log in to make a comment