getData-methods: extract elements of a one or two-dimensional HSDSDataset

In rhdf5client: Access HDF5 content from h5serv

Description

Fetch data from a remote dataset

Usage

getData(dataset, indices, transfermode)

## S4 method for signature 'HSDSDataset,character,character'
getData(dataset, indices, transfermode)

## S4 method for signature 'HSDSDataset,character,missing'
getData(dataset, indices)

## S4 method for signature 'HSDSDataset,list,character'
getData(dataset, indices, transfermode)

## S4 method for signature 'HSDSDataset,list,missing'
getData(dataset, indices)

Arguments

dataset	An object of type HSDSDataset, the dataset to access.
indices	The indices of the data to fetch
transfermode	Either (default) 'JSON' or 'binary'

Details

The servers require data to be fetched in slices, i.e., in sets of for which the indices of each dimension are of the form start:stop:step. More complex sets of indices will be split into slices and fetched in multiple requests. This is opaque to the user, but may enter into considerations of data access patterns, e.g., for performance-tuning.

Value

an Array containing the data fetched from the server

Examples

s <- HSDSSource('http://hsdshdflab.hdfgroup.org')
f <- HSDSFile(s, '/shared/bioconductor/tenx_full.h5')
d <- HSDSDataset(f, '/newassay001')
x <- getData(d, c('1:4', '1:27998'), transfermode='JSON')
# x <- getData(d, c(1:4, 1:27998), transfermode='JSON') # method missing?
x <- d[1:4,1:27998]

rhdf5client documentation built on Nov. 8, 2020, 5:55 p.m.