Generation Challenge Programme

Name of Web Service	Input	Output
getAccessionByGermplasm	Specified genetic resource accession (identifier)	Accession that a given germplasm (identifier) belongs to (if applicable)
getAccessionPassport	Specified genetic resource accession (identifier)	Accession that a given germplasm (identifier) belongs to (if applicable)
getGermplasmByAccession	Germplasm identifier corresponding to (the "FoundingGermplasm" of) an Accession	List of all germplasm identifiers (belonging to the Management Neighbourhood) of the Accession
getGermplasmDetails	germplasm identifier	(List of) full details about specified germplasm
getGermplasmByName	Search string of a germplasm name	(List of) germplasm identifier(s) whose name(s) match
getStudies	germplasm identifier	List of identifiers of germplasm studies where samples of the given germplasm were used in the experiment
getStudyDetails	study identifier	(List of) full details about a specified study
getFeatureList	The "DATATYPE_ID" as defined in Demeter(String) which specifies the dataset to be queried	List of available feature types with associated value semantics, available in a specified dataset (MOBY namespace)
getOntologyTermDetails	The Ontology Term LSID sample input: urn:lsid:generationcp.org: OntologyTerm:GCP_200.0000001	The ontology term details

Name of Web Service	Input	Output
Get_TropGENE_Accession	accession	information about marker types and locus
getGenomicFeatureDetails	genomic feature identifier(with a secondary input precising the type of the genomic feature : locus/qtl)	details on this feature (including map positions on all available maps)
getLocusByName	a locus or QTL identifier with a possibility of wildcard ('locus' or 'qtl' must be specified in the secondary input)	a collection of locus or QTL identifiers.
getMapByName	a map identifier with a possibility of wildcard	a collection of matching map identifiers
getMapDetails	a map identifier	details on this map (including map features, length...)
getQTLByOntology	a trait term as input (in a GCP_SimpleIdentifier id)	a collection of QTL identifiers annotated with this ontology as output
getSequenceByLocus	identifier of a locus of TropgeneDB	the sequence of the locus and the EMBL accession of the locus (id of the GCP_SimpleSequence)
getGeneByGOTerm	gene ontology id or a gene ontology term	a list of gene products identifiers
getGeneByKeywords	gene product names or description	returns a list of identifiers of gene products (protein or RNA)
getGeneWithFST	gene product identifier	returns FST identifiers
getGermplasmByPhenotype	a Trait ontology term or id	mutant germplasm annotated with this given ontology
getTropgeneInfoLocus
getTropgeneLocusSequence
getTropgeneMapInformation
getTropgeneQTL

Name of Web Service	Input	Output
GetMGISAccessionList	a collection of a unique input object related to accessions selection criteria	a collection of output objects representing accessions in the MGIS database
Get_TropGENE_Distance_Matrix		returns different kinds of distance matrices built from a complete disjunctive matrix using R
Get_TropGENE_Distance_Matrix_By_Indices		returns different kinds of distance matrices built from a complete disjunctive matrix using R. All these distances are of type d = p1 - s with s a similarity coefficient. (parameter: for instance 1 = Jaccard. for further information see http://cran.r-project.org/ package ade4 method dist.binary)
Get_TropGENE_Nj_Tree		a neighbour joining tree built from a distance matrix using R and creates a file in the NEXUS format