searchPhenotypeAssociations: searchPhenotypeAssociations function
In GA4GHclient: A Bioconductor package for accessing GA4GH API data servers

Description Usage Arguments Details Value References See Also Examples

View source: R/searchPhenotypeAssociations.R

This function gets a list of phenotype associations matching the search criteria.

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searchPhenotypeAssociations(host, phenotypeAssociationSetId,
  featureIds = character(), phenotypeIds = character(), nrows = Inf,
  responseSize = NA_integer_)

`host`	URL of GA4GH API data server.
`phenotypeAssociationSetId`	Id of the PhenotypeAssociationSet to search.
`featureIds`	Ids of the features. At least one `featureId` or `phenotypeId` must be provided.
`phenotypeIds`	Ids of the phenotypes. At least one `featureId` or `phenotypeId` must be provided.
`nrows`	Number of rows of the data frame returned by this function. If not defined, the function will return all entries. If the number of available entries is less than the value of this this parameter, the function will silently return only the available entries.
`responseSize`	Specifies the number of entries to be returned by the server until reach the number of rows defined in `nrows` parameter or until get all available entries. If not defined, the server will return the allowed maximum reponse size. Increasing this the value of this parameter will reduce the number of requests and reducing the time required. The will not respect this parameter if the value if larger than its maximum response size.

This function requests to /featurephenotypeassociations/search.

DataFrame object. NULL means no registry found.

Official documentation.

DataFrame, searchPhenotypeAssociationSets

host <- "http://1kgenomes.ga4gh.org/"
## Not run: 
datasetId <- searchDatasets(host, nrows = 1)$id
id <- searchPhenotypeAssociationSets(host, datasetId, nrows = 1)$id
searchPhenotypeAssociations(host, id, nrows = 10)

## End(Not run)