HDF5 backend for DelayedArray objects

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Documentation for package ‘HDF5Array’ version 1.18.0

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A C D E G H I L M P Q R S T U W

-- A --

appendDatasetCreationToHDF5DumpLog HDF5 dump management

-- C --

chunkdim-method HDF5ArraySeed objects
chunkdim-method ReshapedHDF5ArraySeed objects
chunkdim-method TENxMatrixSeed objects
chunkdim-method Write an array-like object to an HDF5 file
chunkdim-method Write a matrix-like object as an HDF5-based sparse matrix
class:H5DSetDescriptor An alternative to 'rhdf5::h5read'
class:HDF5Array HDF5 datasets as DelayedArray objects
class:HDF5ArraySeed HDF5ArraySeed objects
class:HDF5Matrix HDF5 datasets as DelayedArray objects
class:HDF5RealizationSink Write an array-like object to an HDF5 file
class:ReshapedHDF5Array Virtually reshaped HDF5 datasets as DelayedArray objects
class:ReshapedHDF5ArraySeed ReshapedHDF5ArraySeed objects
class:ReshapedHDF5Matrix Virtually reshaped HDF5 datasets as DelayedArray objects
class:TENxMatrix 10x Genomics datasets as DelayedMatrix objects
class:TENxMatrixSeed TENxMatrixSeed objects
class:TENxRealizationSink Write a matrix-like object as an HDF5-based sparse matrix
close-method Write a matrix-like object as an HDF5-based sparse matrix
coerce-method HDF5 datasets as DelayedArray objects
coerce-method Virtually reshaped HDF5 datasets as DelayedArray objects
coerce-method 10x Genomics datasets as DelayedMatrix objects
coerce-method TENxMatrixSeed objects
coerce-method Write an array-like object to an HDF5 file
coerce-method Write a matrix-like object as an HDF5-based sparse matrix

-- D --

DelayedArray-method HDF5 datasets as DelayedArray objects
DelayedArray-method Virtually reshaped HDF5 datasets as DelayedArray objects
DelayedArray-method 10x Genomics datasets as DelayedMatrix objects
destroy_H5DSetDescriptor An alternative to 'rhdf5::h5read'
dim-method HDF5ArraySeed objects
dim-method ReshapedHDF5ArraySeed objects
dim-method TENxMatrixSeed objects
dimnames-method HDF5ArraySeed objects
dimnames-method TENxMatrixSeed objects
dimnames-method Write an array-like object to an HDF5 file
dimnames-method Write a matrix-like object as an HDF5-based sparse matrix
dump-management HDF5 dump management

-- E --

extractNonzeroDataByCol 10x Genomics datasets as DelayedMatrix objects
extractNonzeroDataByCol-method 10x Genomics datasets as DelayedMatrix objects
extractNonzeroDataByCol-method TENxMatrixSeed objects
extract_array-method HDF5ArraySeed objects
extract_array-method ReshapedHDF5ArraySeed objects
extract_array-method TENxMatrixSeed objects
extract_sparse_array-method HDF5ArraySeed objects
extract_sparse_array-method TENxMatrixSeed objects

-- G --

getHDF5DumpChunkDim HDF5 dump management
getHDF5DumpChunkLength HDF5 dump management
getHDF5DumpChunkShape HDF5 dump management
getHDF5DumpCompressionLevel HDF5 dump management
getHDF5DumpDir HDF5 dump management
getHDF5DumpFile HDF5 dump management
getHDF5DumpName HDF5 dump management
get_h5dimnames Write/read the dimnames of an HDF5 dataset
get_h5mread_returned_type An alternative to 'rhdf5::h5read'

-- H --

H5DSetDescriptor An alternative to 'rhdf5::h5read'
H5DSetDescriptor-class An alternative to 'rhdf5::h5read'
h5mread An alternative to 'rhdf5::h5read'
h5mread_from_reshaped Read data from a virtually reshaped HDF5 dataset
h5readDimnames Write/read the dimnames of an HDF5 dataset
h5writeDimnames Write/read the dimnames of an HDF5 dataset
HDF5-dump-management HDF5 dump management
HDF5Array HDF5 datasets as DelayedArray objects
HDF5Array-class HDF5 datasets as DelayedArray objects
HDF5ArraySeed HDF5ArraySeed objects
HDF5ArraySeed-class HDF5ArraySeed objects
HDF5Matrix HDF5 datasets as DelayedArray objects
HDF5Matrix-class HDF5 datasets as DelayedArray objects
HDF5RealizationSink Write an array-like object to an HDF5 file
HDF5RealizationSink-class Write an array-like object to an HDF5 file

-- I --

is_sparse-method HDF5ArraySeed objects
is_sparse-method TENxMatrixSeed objects
is_sparse-method Write an array-like object to an HDF5 file
is_sparse<--method HDF5 datasets as DelayedArray objects
is_sparse<--method HDF5ArraySeed objects

-- L --

loadHDF5SummarizedExperiment Save/load an HDF5-based SummarizedExperiment object
lsHDF5DumpFile HDF5 dump management

-- M --

matrixClass-method HDF5 datasets as DelayedArray objects
matrixClass-method Virtually reshaped HDF5 datasets as DelayedArray objects

-- P --

path-method HDF5ArraySeed objects
path-method TENxMatrixSeed objects
path<--method HDF5ArraySeed objects
path<--method TENxMatrixSeed objects

-- Q --

quickResaveHDF5SummarizedExperiment Save/load an HDF5-based SummarizedExperiment object

-- R --

read_sparse_block-method 10x Genomics datasets as DelayedMatrix objects
read_sparse_block-method TENxMatrixSeed objects
ReshapedHDF5Array Virtually reshaped HDF5 datasets as DelayedArray objects
ReshapedHDF5Array-class Virtually reshaped HDF5 datasets as DelayedArray objects
ReshapedHDF5ArraySeed ReshapedHDF5ArraySeed objects
ReshapedHDF5ArraySeed-class ReshapedHDF5ArraySeed objects
ReshapedHDF5Matrix Virtually reshaped HDF5 datasets as DelayedArray objects
ReshapedHDF5Matrix-class Virtually reshaped HDF5 datasets as DelayedArray objects

-- S --

saveHDF5SummarizedExperiment Save/load an HDF5-based SummarizedExperiment object
setHDF5DumpChunkLength HDF5 dump management
setHDF5DumpChunkShape HDF5 dump management
setHDF5DumpCompressionLevel HDF5 dump management
setHDF5DumpDir HDF5 dump management
setHDF5DumpFile HDF5 dump management
setHDF5DumpName HDF5 dump management
set_h5dimnames Write/read the dimnames of an HDF5 dataset
show-method TENxMatrixSeed objects
show-method An alternative to 'rhdf5::h5read'
showHDF5DumpLog HDF5 dump management
sparsity 10x Genomics datasets as DelayedMatrix objects
sparsity-method 10x Genomics datasets as DelayedMatrix objects
sparsity-method TENxMatrixSeed objects

-- T --

TENxMatrix 10x Genomics datasets as DelayedMatrix objects
TENxMatrix-class 10x Genomics datasets as DelayedMatrix objects
TENxMatrixSeed TENxMatrixSeed objects
TENxMatrixSeed-class TENxMatrixSeed objects
TENxRealizationSink Write a matrix-like object as an HDF5-based sparse matrix
TENxRealizationSink-class Write a matrix-like object as an HDF5-based sparse matrix
type-method HDF5ArraySeed objects
type-method Write an array-like object to an HDF5 file
type-method Write a matrix-like object as an HDF5-based sparse matrix

-- U --

updateObject-method HDF5ArraySeed objects

-- W --

writeHDF5Array Write an array-like object to an HDF5 file
writeTENxMatrix Write a matrix-like object as an HDF5-based sparse matrix
write_block-method Write an array-like object to an HDF5 file
write_block-method Write a matrix-like object as an HDF5-based sparse matrix