HDF5Array
HDF5 backend for DelayedArray objects

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299
Source code
26
Man pages
13
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HDF5Array: HDF5 backend for DelayedArray objects
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API

API for HDF5Array
HDF5 backend for DelayedArray objects

Global functions
.Mindex_as_index_list Source code
.append_data Source code
.append_indptr Source code
.append_row_indices Source code
.as_HDF5Array Source code
.as_TENxMatrix Source code
.check_HDF5SummarizedExperiment_h5_file Source code
.check_and_delete_files Source code
.check_dimnames Source code
.check_filepath_and_name Source code
.check_h5dimnames Source code
.check_viewport Source code
.create_dir Source code
.create_empty_data Source code
.create_empty_indptr Source code
.create_empty_row_indices Source code
.destroy_H5DSetDescriptor_xp Source code
.dim_as_integer Source code
.extract_array_from_HDF5ArraySeed Source code
.extract_array_from_ReshapedHDF5ArraySeed Source code
.extract_array_from_TENxMatrixSeed Source code
.extract_data_from_adjacent_cols Source code
.extract_nonzero_data_by_col Source code
.extract_sparse_array_from_HDF5ArraySeed Source code
.extract_sparse_array_from_TENxMatrixSeed Source code
.fancy_mseq Source code
.from_TENxMatrixSeed_to_dgCMatrix Source code
.from_TENxMatrix_to_dgCMatrix Source code
.get_current_col_index Source code
.get_data_indices_by_col Source code
.get_dataset_creation_global_counter Source code
.get_dataset_creation_global_counter_filepath Source code
.get_dump_autofile Source code
.get_dump_autoname Source code
.get_dump_files_global_counter Source code
.get_dump_files_global_counter_filepath Source code
.get_dump_names_global_counter Source code
.get_dump_names_global_counter_filepath Source code
.get_dump_specfile Source code
.get_dump_specname Source code
.get_h5dataset Source code
.get_tenx_barcodes Source code
.get_tenx_data Source code
.get_tenx_gene_names Source code
.get_tenx_genes Source code
.get_tenx_indptr Source code
.get_tenx_row_indices Source code
.get_tenx_shape Source code
.get_unique_assay2h5_links Source code
.h5mread_and_collapse_dims Source code
.linear_extract_nonzero_data_by_col Source code
.linear_load_SparseArraySeed_from_TENxMatrixSeed Source code
.load_SparseArraySeed_from_TENxMatrixSeed Source code
.load_SummarizedExperiment_package Source code
.locked_path Source code
.map_h5_path_to_rds_path Source code
.normarg_chunkdim Source code
.normarg_group Source code
.normarg_h5dimnames Source code
.normarg_method Source code
.onLoad Source code
.random_extract_nonzero_data_by_col Source code
.random_load_SparseArraySeed_from_TENxMatrixSeed Source code
.read_HDF5SummarizedExperiment Source code
.read_counter Source code
.read_h5dataset_first_val Source code
.read_sparse_block_from_TENxMatrixSeed Source code
.read_tenx_component Source code
.replace_dir Source code
.restore_absolute_assay2h5_links Source code
.safe_file_rename Source code
.serialize_HDF5SummarizedExperiment Source code
.set_dump_autofiles_mode Source code
.set_dump_autonames_mode Source code
.set_dump_dir Source code
.set_dump_specfile Source code
.set_dump_specname Source code
.shorten_assay2h5_links Source code
.stop_if_bad_dir Source code
.stop_if_cannot_quick_resave Source code
.test Source code
.validate_HDF5ArraySeed Source code
.validate_h5dimnames_lengths Source code
.write_HDF5SummarizedExperiment Source code
.write_TENx_component Source code
.write_barcodes Source code
.write_counter Source code
.write_genes Source code
.write_h5_assays Source code
.write_shape Source code
DelayedArray,HDF5ArraySeed-method Man page
DelayedArray,ReshapedHDF5ArraySeed-method Man page
DelayedArray,TENxMatrixSeed-method Man page
H5DSetDescriptor Man page Source code
H5DSetDescriptor-class Man page
HDF5-dump-management Man page
HDF5Array Man page Source code
HDF5Array-class Man page
HDF5ArraySeed Man page Source code
HDF5ArraySeed-class Man page
HDF5Matrix Man page
HDF5Matrix-class Man page
HDF5RealizationSink Man page Source code
HDF5RealizationSink-class Man page
ReshapedHDF5Array Man page Source code
ReshapedHDF5Array-class Man page
ReshapedHDF5ArraySeed Man page Source code
ReshapedHDF5ArraySeed-class Man page
ReshapedHDF5Matrix Man page
ReshapedHDF5Matrix-class Man page
TENxMatrix Man page Source code
TENxMatrix-class Man page
TENxMatrixSeed Man page Source code
TENxMatrixSeed-class Man page
TENxRealizationSink Man page Source code
TENxRealizationSink-class Man page
add_prefix_to_basename Source code
appendDatasetCreationToHDF5DumpLog Man page Source code
check_ordered_uaselection Source code
check_uaselection Source code
chunkdim,HDF5ArraySeed-method Man page
chunkdim,HDF5RealizationSink-method Man page
chunkdim,ReshapedHDF5ArraySeed-method Man page
chunkdim,TENxMatrixSeed-method Man page
chunkdim,TENxRealizationSink-method Man page
class:H5DSetDescriptor Man page
class:HDF5Array Man page
class:HDF5ArraySeed Man page
class:HDF5Matrix Man page
class:HDF5RealizationSink Man page
class:ReshapedHDF5Array Man page
class:ReshapedHDF5ArraySeed Man page
class:ReshapedHDF5Matrix Man page
class:TENxMatrix Man page
class:TENxMatrixSeed Man page
class:TENxRealizationSink Man page
close,TENxRealizationSink-method Man page
coerce,ANY,HDF5Array-method Man page
coerce,ANY,HDF5Matrix-method Man page
coerce,ANY,ReshapedHDF5Matrix-method Man page
coerce,ANY,TENxMatrix-method Man page
coerce,DelayedArray,HDF5Array-method Man page
coerce,DelayedArray,TENxMatrix-method Man page
coerce,DelayedMatrix,HDF5Matrix-method Man page
coerce,DelayedMatrix,TENxMatrix-method Man page
coerce,HDF5Array,HDF5Matrix-method Man page
coerce,HDF5Matrix,HDF5Array-method Man page
coerce,HDF5RealizationSink,DelayedArray-method Man page
coerce,HDF5RealizationSink,HDF5Array-method Man page
coerce,HDF5RealizationSink,HDF5ArraySeed-method Man page
coerce,ReshapedHDF5Array,ReshapedHDF5Matrix-method Man page
coerce,ReshapedHDF5Matrix,ReshapedHDF5Array-method Man page
coerce,TENxMatrix,dgCMatrix-method Man page
coerce,TENxMatrix,sparseMatrix-method Man page
coerce,TENxMatrixSeed,dgCMatrix-method Man page
coerce,TENxMatrixSeed,sparseMatrix-method Man page
coerce,TENxRealizationSink,DelayedArray-method Man page
coerce,TENxRealizationSink,TENxMatrix-method Man page
coerce,TENxRealizationSink,TENxMatrixSeed-method Man page
collapse_dims Source code
compute_max_string_size Source code
create_and_log_HDF5_dataset Source code
destroy_H5DSetDescriptor Man page Source code
dim,HDF5ArraySeed-method Man page
dim,ReshapedHDF5ArraySeed-method Man page
dim,TENxMatrixSeed-method Man page
dimnames,HDF5ArraySeed-method Man page
dimnames,HDF5RealizationSink-method Man page
dimnames,TENxMatrixSeed-method Man page
dimnames,TENxRealizationSink-method Man page
dump-management Man page
extractNonzeroDataByCol Man page
extractNonzeroDataByCol,TENxMatrix-method Man page
extractNonzeroDataByCol,TENxMatrixSeed-method Man page
extract_array,HDF5ArraySeed-method Man page
extract_array,ReshapedHDF5ArraySeed-method Man page
extract_array,TENxMatrixSeed-method Man page
extract_sparse_array,HDF5ArraySeed-method Man page
extract_sparse_array,TENxMatrixSeed-method Man page
find_dims_to_collapse Source code
getHDF5DumpChunkDim Man page Source code
getHDF5DumpChunkLength Man page Source code
getHDF5DumpChunkShape Man page Source code
getHDF5DumpCompressionLevel Man page Source code
getHDF5DumpDir Man page Source code
getHDF5DumpFile Man page Source code
getHDF5DumpName Man page Source code
get_HDF5_dump_logfile Source code
get_global_counter Source code
get_h5dimnames Man page Source code
get_h5mread_returned_type Man page Source code
h5append Source code
h5chunkdim Source code
h5createDataset2 Source code
h5dim Source code
h5exists Source code
h5getdimlabels Source code
h5getdimscales Source code
h5isdimscale Source code
h5length Source code
h5mread Man page Source code
h5mread_from_reshaped Man page Source code
h5read2 Source code
h5readDimnames Man page Source code
h5setdimlabels Source code
h5setdimscales Source code
h5writeDimnames Man page Source code
has_trailing_slash Source code
init_HDF5_dataset_creation_global_counter Source code
init_HDF5_dump_files_global_counter Source code
init_HDF5_dump_names_global_counter Source code
init_global_counter Source code
is_sparse,HDF5ArraySeed-method Man page
is_sparse,HDF5RealizationSink-method Man page
is_sparse,TENxMatrixSeed-method Man page
is_sparse<-,HDF5Array-method Man page
is_sparse<-,HDF5ArraySeed-method Man page
loadHDF5SummarizedExperiment Man page Source code
lock_file Source code
lsHDF5DumpFile Man page Source code
map_starts_to_chunks Source code
matrixClass,HDF5Array-method Man page
matrixClass,ReshapedHDF5Array-method Man page
normalize_compression_level Source code
normalize_dump_filepath Source code
normalize_dump_name Source code
normarg_path Source code
path,HDF5ArraySeed-method Man page
path,TENxMatrixSeed-method Man page
path<-,HDF5ArraySeed-method Man page
path<-,TENxMatrixSeed-method Man page
quickResaveHDF5SummarizedExperiment Man page Source code
read_sparse_block,TENxMatrix-method Man page
read_sparse_block,TENxMatrixSeed-method Man page
reduce_uaselection Source code
saveHDF5SummarizedExperiment Man page Source code
setHDF5DumpChunkLength Man page Source code
setHDF5DumpChunkShape Man page Source code
setHDF5DumpCompressionLevel Man page Source code
setHDF5DumpDir Man page Source code
setHDF5DumpFile Man page Source code
setHDF5DumpName Man page Source code
set_h5dimnames Man page Source code
show,H5DSetDescriptor-method Man page
show,TENxMatrixSeed-method Man page
showHDF5DumpLog Man page Source code
sparsity Man page
sparsity,TENxMatrix-method Man page
sparsity,TENxMatrixSeed-method Man page
trim_trailing_slashes Source code
type,HDF5ArraySeed-method Man page
type,HDF5RealizationSink-method Man page
type,TENxRealizationSink-method Man page
unlock_file Source code
updateObject,HDF5ArraySeed-method Man page
validate_HDF5ArraySeed_dataset Source code
validate_lengths_of_h5dimnames Source code
writeHDF5Array Man page Source code
writeTENxMatrix Man page Source code
write_block,HDF5RealizationSink-method Man page
write_block,TENxRealizationSink-method Man page
HDF5Array documentation built on Feb. 6, 2021, 2 a.m.

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