Workflow Entry: t_tp53_mutations_info_by_morpho - "in progress"

Created at: 09/02/10 @ 13:45:16 Last updated: 04/06/10 @ 08:22:15

Version 1 (of 1)

Version created on: 09/02/10 @ 13:45:16 by: Achille Zappa | Revision comments Expand

Last edited on: 04/06/10 @ 08:22:17 by: Achille Zappa

Title: t_tp53_mutations_info_by_morpho - "in progress"

Type: Taverna 1

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Description

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Workflow Components

Inputs (1)

Name	Description
query

Processors (29)

Name	Type	Description
String_Constant2	stringconstant
String_Constant3	stringconstant
dataset	stringconstant
query_field	stringconstant
Split_string_2	local
Remove_duplicate_strings	local
Filter_list_3	local
Filter_list_1	local
Filter_list_2	local
Split_string_	local
Split_string_1	local
Filter_list_	local
filter_list1	beanshell
filter_list	beanshell
count	workflow	Simple workflow to count the number of items in a list;
count1	workflow	Simple workflow to count the number of items in a list;
R_topo	workflow	It plots the distribution.
R_type	workflow	It plots the distribution.
R_effect	workflow	It plots the distribution.
R_exon	workflow	It plots the distribution.
R_codons	workflow	It plots the distribution.
getP53_Mutations	soaplabwsdl	Get tp53 gene mutations by ids from TP53 IARC database (see http://srs.o2i.it/srs71/)
getP53_Ids	soaplabwsdl	Get tp53 ids by field label from one of the IARC TP53 databases (see srs.o2i.it/srs71/)
getP53_Intron	soaplabwsdl	Get any tp53 field value starting by another field value choosen from one of the IARC TP53 databases (see srs.o2i.it/srs71/)
getP53_Topography	soaplabwsdl	Get any tp53 field value starting by another field value choosen from one of the IARC TP53 databases (see srs.o2i.it/srs71/)
getP53_Effect	soaplabwsdl	Get any tp53 field value starting by another field value choosen from one of the IARC TP53 databases (see srs.o2i.it/srs71/)
getP53_Codons	soaplabwsdl	Get any tp53 field value starting by another field value choosen from one of the IARC TP53 databases (see srs.o2i.it/srs71/)
getP53_Mut_Type	soaplabwsdl	Get any tp53 field value starting by another field value choosen from one of the IARC TP53 databases (see srs.o2i.it/srs71/)
getP53_Exon	soaplabwsdl	Get any tp53 field value starting by another field value choosen from one of the IARC TP53 databases (see srs.o2i.it/srs71/)

Beanshells (4)

Name	Inputs	Outputs
CountListElements	list	count
CountListElements	list	count
filter_list1	inputs	result
filter_list	inputs	result

Outputs (34)

Name	Description
Som_Mut_IDs
Codons_num
c1
c2
o
mut
Codons_distr
Codons_log
Codons_summ
hist
pie
bar
test
test2
type
effect
intron
exon
Exons_distr
Exons_log
Exons_summ
exons_bar
exons_pie
exons_hist
topo_bar
topo_pie
filt_type
bar_type
pie_type
type_list
topo_list
effect_pie
effect_bar
effect_list

Links (69)

Source	Sink
Filter_list_1:filteredlist	R_codons:i
Filter_list_2:filteredlist	R_topo:i
Remove_duplicate_strings:strippedlist	count:list
Split_string_1:split	Filter_list_:stringlist
Split_string_1:split	count1:list
Split_string_2:split	Filter_list_2:stringlist
Split_string_:split	Filter_list_1:stringlist
Split_string_:split	Remove_duplicate_strings:stringlist
String_Constant2:value	Split_string_1:regex
String_Constant2:value	Split_string_2:regex
String_Constant2:value	Split_string_:regex
String_Constant3:value	Filter_list_:regex
dataset:value	getP53_Codons:dataset
dataset:value	getP53_Ids:dataset
dataset:value	getP53_Topography:dataset
query	getP53_Codons:query
query	getP53_Ids:query
Filter_list_3:filteredlist	R_exon:i
Filter_list_:filteredlist	getP53_Effect:query
Filter_list_:filteredlist	getP53_Exon:query
Filter_list_:filteredlist	getP53_Intron:query
Filter_list_:filteredlist	getP53_Mut_Type:query
Filter_list_:filteredlist	getP53_Mutations:id
filter_list1:result	R_effect:i
filter_list:result	R_type:i
getP53_Codons:result	Split_string_:string
getP53_Effect:result	filter_list1:inputs
getP53_Exon:result	Filter_list_3:stringlist
getP53_Ids:result	Split_string_1:string
getP53_Mut_Type:result	filter_list:inputs
getP53_Topography:result	Split_string_2:string
query	getP53_Topography:query
Filter_list_2:filteredlist	test2
Filter_list_:filteredlist	o
R_codons:DistributionPlot	Codons_distr
R_codons:LogPlot	Codons_log
R_codons:PointList	Codons_summ
R_codons:bar	bar
R_codons:hist	hist
R_codons:pie	pie
R_effect:bar	effect_bar
R_effect:n_list	effect_list
R_effect:pie	effect_pie
R_exon:DistributionPlot	Exons_distr
R_exon:LogPlot	Exons_log
R_exon:PointList	Exons_summ
R_exon:bar	exons_bar
R_exon:hist	exons_hist
R_exon:pie	exons_pie
R_topo:bar	topo_bar
R_topo:n_list	topo_list
R_topo:pie	topo_pie
R_type:bar	bar_type
R_type:n_list	type_list
R_type:pie	pie_type
count1:count	c2
count:count	c1
filter_list:result	filt_type
query_field:value	getP53_Codons:field
query_field:value	getP53_Ids:field
query_field:value	getP53_Topography:field
getP53_Codons:result	Codons_num
getP53_Effect:result	effect
getP53_Exon:result	exon
getP53_Ids:result	Som_Mut_IDs
getP53_Intron:result	intron
getP53_Mut_Type:result	type
getP53_Mutations:result	mut
getP53_Topography:result	test

Coordinations (7)

Controller	Target
getP53_Codons	getP53_Topography
getP53_Topography	getP53_Ids
getP53_Topography	getP53_Mut_Type
getP53_Mut_Type	getP53_Effect
getP53_Intron	getP53_Exon
getP53_Effect	getP53_Intron
getP53_Exon	getP53_Mutations