string_complete.xml
Created: 2008-07-12 10:17:40
Last updated: 2008-07-12 10:18:27
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Workflow Components
Processors (21)
| Name |
Type |
Description |
| database |
stringconstant |
|
| start |
stringconstant |
|
| end |
stringconstant |
|
| chromosome |
stringconstant |
|
| getgenesbyspecies |
soaplabwsdl |
Retrieves a list of Ensembl genes for a given species, chromosome and position |
| probeset_in_qtl |
soaplabwsdl |
Gets the probesets that are in a region of a chromosome e.g. in a QTL or based on 2 marker names |
| array_name |
stringconstant |
|
| probeset_to_gene |
soaplabwsdl |
Gets ENSEMBL gene IDS that are based on the probeset names passed to it |
| split_by_regex1 |
local |
|
| regex1 |
stringconstant |
|
| Merge_string_list1 |
local |
|
| comma1 |
stringconstant |
|
| parse_gene_name |
beanshell |
|
| regex_2 |
stringconstant |
|
| getGeneInfo |
arbitrarywsdl |
|
| options |
stringconstant |
|
| split_by_regex_2 |
local |
|
| parse_ddbj_gene_info |
soaplabwsdl |
extract information from geneGeneInfo processor at http://xml.nig.ac.jp/wsdl/Ensembl.wsdl |
| parsing_options |
stringconstant |
|
| parse_swiss |
beanshell |
|
| parse_ddbj_gene_info2 |
soaplabwsdl |
extract information from geneGeneInfo processor at http://xml.nig.ac.jp/wsdl/Ensembl.wsdl |
Beanshells (2)
| Name |
Description |
Inputs |
Outputs |
| parse_gene_name |
|
input
|
output
|
| parse_swiss |
|
input
|
output
|
Outputs (5)
| Name |
Description |
| probesets_in_qtl |
|
| genes_from_probeset |
|
| genes_in_qtl |
|
| gene_name |
|
| swissprot_id |
|
Links (32)
| Source |
Sink |
| Merge_string_list1:concatenated |
probeset_to_gene:probeset_list |
| array_name:value |
probeset_in_qtl:array_name |
| chromosome:value |
getgenesbyspecies:chromo |
| chromosome:value |
probeset_in_qtl:chromosome |
| chromosome:value |
probeset_to_gene:chromosome |
| comma1:value |
Merge_string_list1:seperator |
| database:value |
getgenesbyspecies:database |
| database:value |
probeset_in_qtl:database |
| database:value |
probeset_to_gene:database |
| end:value |
getgenesbyspecies:end |
| end:value |
probeset_in_qtl:end |
| end:value |
probeset_to_gene:end |
| getGeneInfo:Result |
parse_ddbj_gene_info2:file_direct_data |
| getGeneInfo:Result |
parse_ddbj_gene_info:file_direct_data |
| getgenesbyspecies:output |
split_by_regex_2:string |
| options:value |
parse_ddbj_gene_info:options |
| parse_ddbj_gene_info2:output |
parse_swiss:input |
| parse_ddbj_gene_info:output |
parse_gene_name:input |
| parsing_options:value |
parse_ddbj_gene_info2:options |
| getgenesbyspecies:output |
genes_in_qtl |
| parse_gene_name:output |
gene_name |
| parse_swiss:output |
swissprot_id |
| probeset_in_qtl:output |
split_by_regex1:string |
| regex1:value |
split_by_regex1:regex |
| regex_2:value |
split_by_regex_2:regex |
| split_by_regex1:split |
Merge_string_list1:stringlist |
| split_by_regex_2:split |
getGeneInfo:geneId |
| start:value |
probeset_in_qtl:start |
| start:value |
probeset_to_gene:start |
| probeset_in_qtl:output |
probesets_in_qtl |
| probeset_to_gene:output |
genes_from_probeset |
| start:value |
getgenesbyspecies:start |
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