This package is considered a duplicate. The official version of this package is found at:https://bioc.r-universe.dev/S4Arrays

Package: S4Arrays 1.13.0

Hervé Pagès

S4Arrays: Foundation of array-like containers in Bioconductor

The S4Arrays package defines the Array virtual class to be extended by other S4 classes that wish to implement a container with an array-like semantic. It also provides: (1) low-level functionality meant to help the developer of such container to implement basic operations like display, subsetting, or coercion of their array-like objects to an ordinary matrix or array, and (2) a framework that facilitates block processing of array-like objects (typically on-disk objects).

Authors:Hervé Pagès [aut, cre], Jacques Serizay [ctb]

S4Arrays_1.13.0.tar.gz
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manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
S4Arrays/json (API)

# Install 'S4Arrays' in R:

install.packages('S4Arrays', repos = c('https://mojaveazure.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/bioconductor/s4arrays/issues

On BioConductor:S4Arrays-1.13.0(bioc 3.24)S4Arrays-1.12.0(bioc 3.23)

infrastructure datarepresentation bioconductor-package core-package u24ca289073

9.07 score 7 stars 1.4k packages 16 scripts 77 exports 7 dependencies

Last updated from:7db423752b. Checks:11 NOTE, 2 OK. Indexed: no.

Target	Result	Time
linux-devel-arm64	NOTE	222
linux-devel-x86_64	NOTE	251
source / vignettes	OK	215
linux-release-arm64	NOTE	252
linux-release-x86_64	NOTE	235
macos-release-arm64	NOTE	120
macos-release-x86_64	NOTE	391
macos-oldrel-arm64	NOTE	141
macos-oldrel-x86_64	NOTE	279
windows-devel	NOTE	180
windows-release	NOTE	176
windows-oldrel	NOTE	165
wasm-release	OK	128

Exports:abind acbind aperm aperm.ArbitraryArrayGrid aperm.DummyArrayGrid aperm.RegularArrayGrid aperm2 arbind ArbitraryArrayGrid arep_each arep_times ArrayViewport as_tile as.array.Array as.character.Array as.character.ArrayGrid as.complex.Array as.data.frame as.data.frame.Array as.integer.Array as.logical.Array as.matrix as.matrix.Array as.numeric.Array as.raw.Array as.vector.Array bindROWS cbind coerce colsum dims downsample drop DummyArrayGrid DummyArrayViewport end extract_array is_sparse is_sparse<-isEmpty kronecker kronecker2 Lindex2Mindex makeNindexFromArrayViewport mapToGrid mapToRef maxlength mean Mindex2Lindex nchar Ops ranges rbind read_block read_block_as_dense refdim RegularArrayGrid rowsum show showAsCell start subassign_Array_by_Lindex subassign_Array_by_logical_array subassign_Array_by_Mindex subassign_Array_by_Nindex subset_Array_by_Lindex subset_Array_by_logical_array subset_Array_by_Mindex subset_Array_by_Nindex t t.Array tune_Array_dims type var which width write_block

Dependencies:abind BiocGenerics generics IRanges lattice Matrix S4Vectors

A quick overview of the S4Arrays package

Rendered fromS4Arrays_quick_overview.Rmdusingknitr::rmarkdown

Last update: 2025-02-08
Started: 2023-03-24

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Generalized permutation of the dimensions of an array	aperm2
Replicate array elements	arep arep_each arep_each,ANY-method arep_times arep_times,ANY-method
Manipulation of array selections	array selection array selections array_selection array_selections L-index Lindex Lindex2Mindex M-index Mindex Mindex2Lindex N-index Nindex
Multidimensional array recycling	array_recycling as_tile class:tile Ops,array,tile-method Ops,tile,array-method Ops,tile,tile-method tile tile-class
Array objects	Array Array-class as.matrix,Array-method as.matrix.Array class:Array isEmpty,Array-method length,Array-method showAsCell,Array-method t,Array-method t.Array [[,Array-method
Kronecker products on Array objects	Array-kronecker Array-kronecker-methods Array_kronecker Array_kronecker-methods kronecker kronecker,ANY,Array-method kronecker,Array,ANY-method kronecker,Array,Array-method kronecker2
ArrayGrid and ArrayViewport objects	aperm,ArbitraryArrayGrid-method aperm,DummyArrayGrid-method aperm,RegularArrayGrid-method aperm.ArbitraryArrayGrid aperm.DummyArrayGrid aperm.RegularArrayGrid ArbitraryArrayGrid ArbitraryArrayGrid-class ArrayGrid ArrayGrid-class ArrayViewport ArrayViewport-class as.character,ArrayGrid-method as.character.ArrayGrid class:ArbitraryArrayGrid class:ArrayGrid class:ArrayViewport class:DummyArrayGrid class:DummyArrayViewport class:RegularArrayGrid class:SafeArrayViewport classNameForDisplay,ArrayViewport-method dim,ArbitraryArrayGrid-method dim,ArrayViewport-method dim,DummyArrayGrid-method dim,RegularArrayGrid-method dims dims,ArrayGrid-method downsample downsample,ArbitraryArrayGrid-method downsample,RegularArrayGrid-method DummyArrayGrid DummyArrayGrid-class DummyArrayViewport DummyArrayViewport-class end,ArrayViewport-method lengths,ArrayGrid-method lengths,DummyArrayGrid-method makeNindexFromArrayViewport maxlength maxlength,ANY-method maxlength,ArbitraryArrayGrid-method maxlength,RegularArrayGrid-method ranges,DummyArrayViewport-method ranges,SafeArrayViewport-method refdim refdim,ArbitraryArrayGrid-method refdim,ArrayViewport-method refdim,DummyArrayGrid-method refdim,RegularArrayGrid-method RegularArrayGrid RegularArrayGrid-class SafeArrayViewport SafeArrayViewport-class show,ArrayGrid-method show,ArrayViewport-method start,ArrayViewport-method width,ArrayViewport-method
Combine multidimensional array-like objects	abind abind,ANY-method acbind acbind,ANY-method arbind arbind,ANY-method bind arrays bind-arrays
Check for sparse representation	is_sparse is_sparse,ANY-method is_sparse,CsparseMatrix-method is_sparse,RsparseMatrix-method is_sparse,TsparseMatrix-method is_sparse<-
Read array blocks	read_block read_block_as_dense read_block_as_dense,ANY-method
Compute column/row sums of a matrix-like object, for groups of rows/columns	colsum colsum,ANY-method colsum,matrix-method rowsum
Get the type of the elements of an array-like object	type type,ANY-method type,DataFrame-method
Write array blocks	write_block write_block,ANY-method