GA4GHResourceClient: GA4GH htsget server resource client

In isglobal-brge/dsOmics: DataSHIELD server site Omic functions

GA4GH htsget server resource client

Description

Build a GDS handler from a resource object describing access to a GA4GH htsget enabled server, pointing to a VCF or BAM file to be converted into a GDS file.

Format

A R6 object of class GA4GHResourceClient

Super classes

resourcer::ResourceClient -> resourcer::FileResourceClient -> GA4GHResourceClient

Methods

Public methods

• GA4GHResourceClient$new()

• GA4GHResourceClient$getConnection()

• GA4GHResourceClient$getValue()

• GA4GHResourceClient$close()

• GA4GHResourceClient$clone()

Inherited methods

• resourcer::ResourceClient$asDataFrame()
• resourcer::ResourceClient$asTbl()
• resourcer::ResourceClient$exec()
• resourcer::ResourceClient$getResource()
• resourcer::FileResourceClient$downloadFile()

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Method new()

Usage

GA4GHResourceClient$new(resource)

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Method getConnection()

Usage

GA4GHResourceClient$getConnection()

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Method getValue()

Usage

GA4GHResourceClient$getValue()

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Method close()

Usage

GA4GHResourceClient$close()

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Method clone()

The objects of this class are cloneable with this method.

Usage

GA4GHResourceClient$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

isglobal-brge/dsOmics documentation built on March 22, 2023, 4:01 a.m.