Package: alabaster.matrix 1.5.4
Aaron Lun
alabaster.matrix: Load and Save Artifacts from File
Save matrices, arrays and similar objects into file artifacts, and load them back into memory. This is a more portable alternative to serialization of such objects into RDS files. Each artifact is associated with metadata for further interpretation; downstream applications can enrich this metadata with context-specific properties.
Authors:
alabaster.matrix_1.5.4.tar.gz
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alabaster.matrix.pdf |alabaster.matrix.html✨
alabaster.matrix/json (API)
NEWS
| # Install 'alabaster.matrix' in R: |
| install.packages('alabaster.matrix', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:alabaster.matrix-1.5.3(bioc 3.20)alabaster.matrix-1.4.1(bioc 3.19)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 19 days agofrom:3d04935f3e
Exports:.createRawArraySeed.extractArrayDimnamesAmalgamatedArrayAmalgamatedArraySeedchunkdimcomponentNamesDelayedArrayDelayedMaskextract_arrayextract_sparse_arrayextractComponentsis_sparseloadArrayloadWrapperArraymatrixClassOLD_extract_sparse_arraypathpreserveDelayedOperationsreadArrayreadDelayedArrayreadSparseMatrixrecycleHdf5FilesreloadDelayedObjectReloadedArrayReloadedArraySeedsaveObjectstageObjectstoreDelayedObjectwriteSparseMatrix
Dependencies:abindalabaster.basealabaster.schemasBiocGenericscrayoncurlDelayedArrayHDF5ArrayIRangesjsonlitejsonvalidatelatticeMatrixMatrixGenericsmatrixStatsRcpprhdf5rhdf5filtersRhdf5libS4ArraysS4VectorsSparseArrayV8XVectorzlibbioc
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Amalgamated array class | AmalgamatedArray AmalgamatedArray-class AmalgamatedArraySeed AmalgamatedArraySeed-class AmalgamatedMatrix-class coerce,AmalgamatedArray,AmalgamatedMatrix-method coerce,AmalgamatedMatrix,AmalgamatedArray-method componentNames DelayedArray,AmalgamatedArraySeed-method extractComponents matrixClass,AmalgamatedArray-method stageObject,AmalgamatedArray-method |
| Array loading utilities | .createRawArraySeed .extractArrayDimnames createRawArraySeed |
| Delayed masking | chunkdim,DelayedMask-method DelayedMask DelayedMask-class dim,DelayedMask-method dimnames,DelayedMask-method extract_array,DelayedMask-method extract_sparse_array,DelayedMask-method is_sparse,DelayedMask-method OLD_extract_sparse_array,DelayedMask-method path,DelayedMask-method |
| Preserve delayed operations during staging | preserveDelayedOperations |
| Read a dense array from disk | loadArray readArray |
| Read a delayed array from disk | readDelayedArray |
| Read a sparse matrix from disk | readSparseMatrix |
| Recycle existing HDF5 files | recycleHdf5Files |
| Reloaded 'alabaster' array | coerce,ReloadedArray,ReloadedMatrix-method coerce,ReloadedMatrix,ReloadedArray-method DelayedArray,ReloadedArraySeed-method matrixClass,ReloadedArray-method path,ReloadedArraySeed-method ReloadedArray ReloadedArray-class ReloadedArraySeed ReloadedArraySeed-class ReloadedMatrix-class saveObject,ReloadedArray-method |
| Save a multi-dimensional array to disk | saveArray saveObject,array-method saveObject,denseMatrix-method stageObject,array-method stageObject,Matrix-method |
| Save DelayedArrays to disk | saveDelayedArray saveObject,DelayedArray-method stageObject,DelayedArray-method stageObject,DelayedMatrix-method |
| Save a sparse matrix to disk | saveObject,sparseMatrix-method saveObject,SVT_SparseMatrix-method saveSparseMatrix |
| Store operations in a DelayedArray | reloadDelayedObject storeDelayedObject storeDelayedObject,ANY-method storeDelayedObject,array-method storeDelayedObject,ConstantArraySeed-method storeDelayedObject,DelayedAbind-method storeDelayedObject,DelayedAperm-method storeDelayedObject,DelayedNaryIsoOp-method storeDelayedObject,DelayedSetDimnames-method storeDelayedObject,DelayedSubassign-method storeDelayedObject,DelayedSubset-method storeDelayedObject,DelayedUnaryIsoOpStack-method storeDelayedObject,DelayedUnaryIsoOpWithArgs-method storeDelayedObject,denseMatrix-method storeDelayedObject,sparseMatrix-method storeDelayedObject,SVT_SparseMatrix-method |
| DelayedArray wrapper seed | chunkdim,WrapperArraySeed-method coerce,WrapperArray,dgCMatrix-method coerce,WrapperArraySeed,dgCMatrix-method dim,WrapperArraySeed-method dimnames,WrapperArraySeed-method extract_array,WrapperArraySeed-method extract_sparse_array,WrapperArraySeed-method is_sparse,WrapperArraySeed-method loadWrapperArray OLD_extract_sparse_array,WrapperArraySeed-method path,WrapperArraySeed-method WrapperArray-class WrapperArraySeed WrapperArraySeed-class |
| Write a sparse matrix | writeSparseMatrix |
