R.huge: Methods for Accessing Huge Amounts of Data [deprecated]

DEPRECATED. Do not start building new projects based on this package. Cross-platform alternatives are the following packages: bigmemory (CRAN), ff (CRAN), BufferedMatrix (Bioconductor). The main usage of it was inside the aroma.affymetrix package. (The package currently provides a class representing a matrix where the actual data is stored in a binary format on the local file system. This way the size limit of the data is set by the file system and not the memory.)

Author
Henrik Bengtsson [aut, cre, cph]
Date of publication
2015-02-22 20:52:32
Maintainer
Henrik Bengtsson <henrikb@braju.com>
License
LGPL (>= 2.1)
Version
0.9.0
URLs

View on CRAN

Man pages

000-LB-.FileMatrix
Gets a subset of elements of a file matrix
000-LB-.FileVector
Gets a subset of elements of a file vector
000-LB-LT_-.FileMatrix
Assigns values to a subset of elements of a file matrix
000-LB-LT_-.FileVector
Assigns values to a subset of elements of a file vector
AbstractFileArray
Class representing a persistent array stored in a file
as.character.AbstractFileArray
Returns a short string describing the file array
as.character.FileMatrix
Returns a short string describing the file matrix
as.matrix.FileMatrix
Returns the elements of a file matrix as an R matrix
as.vector.AbstractFileArray
Returns the elements of a file array as an R vector
clone.AbstractFileArray
Clones a file array
close.AbstractFileArray
Closes a connection to the data file of the file array
colnames.FileMatrix
Gets the column names of a file matrix
delete.AbstractFileArray
Deletes the file array from the file system
dim.AbstractFileArray
Gets the dimension of the file array
dimnames.AbstractFileArray
Gets the dimension names of a file array
FileMatrix
Class representing a persistent matrix stored in a file
FileVector
Class representing a persistent vector stored on file
finalize.AbstractFileArray
Internal: Clean up when file array is deallocated from memory
flush.AbstractFileArray
Internal: Flushes the write buffer
getBasename.AbstractFileArray
Gets the basename (filename) of the data file
getByRow.FileMatrix
Checks if elements are stored row by row or not
getBytesPerCell.AbstractFileArray
Gets the number of bytes per element in a file array
getCloneNumber.AbstractFileArray
Gets the clone number of the file array
getComments.AbstractFileArray
Gets the comments for this file array
getDataOffset.AbstractFileArray
Gets file position of the data section in a file array
getDimensionOrder.AbstractFileArray
Gets the order of dimension
getExtension.AbstractFileArray
Gets the filename extension of the file array
getFileSize.AbstractFileArray
Gets the size of the file array
getName.AbstractFileArray
Gets the name of the file array
getPath.AbstractFileArray
Gets the path (directory) where the data file lives
getPathname.AbstractFileArray
Gets the full pathname to the data file
getSizeOfComments.AbstractFileArray
Gets the number of bytes the comments occupies
getSizeOfData.AbstractFileArray
Gets the size of the data section in bytes
getStorageMode.AbstractFileArray
Gets the storage mode of the file array
isOpen.AbstractFileArray
Checks whether the data file of the file array is open or not
length.AbstractFileArray
Gets the number of elements in a file array
names.FileVector
Gets the element names of a file vector
ncol.FileMatrix
Gets the number of columns of the matrix
Non-documented_objects
Non-documented objects
nrow.FileMatrix
Gets the number of rows of the matrix
open.AbstractFileArray
Opens a connection to the data file of the file array
readAllValues.AbstractFileArray
Reads all values in the file array
readContiguousValues.AbstractFileArray
Reads sets of contiguous values in the file array
readHeader.AbstractFileArray
Read the header of a file array data file
readValues.AbstractFileArray
Reads individual values in the file array
R.huge-package
Package R.huge
rowMeans.FileMatrix
Calculates the means for each row
rownames.FileMatrix
Gets the row names of a file matrix
rowSums.FileMatrix
Calculates the sum for each row
setComments.AbstractFileArray
Sets the comments for this file array
writeAllValues.AbstractFileArray
Writes all values to a file array
writeEmptyData.AbstractFileArray
Writes an empty data section to the data file of a file array
writeHeader.AbstractFileArray
Writes the header of a file array to file
writeValues.AbstractFileArray
Writes values to a file array

Files in this package

R.huge
R.huge/tests
R.huge/tests/FileByteVector.R
R.huge/tests/FileMatrix,bug20070821.R
R.huge/tests/FileMatrix,bug20070719.R
R.huge/NAMESPACE
R.huge/NEWS
R.huge/R
R.huge/R/FileByteVector.R
R.huge/R/000.R
R.huge/R/FileShortVector.R
R.huge/R/FileVector.R
R.huge/R/FileDoubleVector.R
R.huge/R/FileByteMatrix.R
R.huge/R/FileIntegerVector.R
R.huge/R/FileFloatMatrix.R
R.huge/R/FileDoubleMatrix.R
R.huge/R/FileIntegerMatrix.R
R.huge/R/AbstractFileArray.R
R.huge/R/FileFloatVector.R
R.huge/R/006.fixVarArgs.R
R.huge/R/FileShortMatrix.R
R.huge/R/seekCon.R
R.huge/R/999.NonDocumentedObjects.R
R.huge/R/999.package.R
R.huge/R/FileMatrix.R
R.huge/R/zzz.R
R.huge/MD5
R.huge/DESCRIPTION
R.huge/man
R.huge/man/AbstractFileArray.Rd
R.huge/man/names.FileVector.Rd
R.huge/man/getDimensionOrder.AbstractFileArray.Rd
R.huge/man/readAllValues.AbstractFileArray.Rd
R.huge/man/getBytesPerCell.AbstractFileArray.Rd
R.huge/man/setComments.AbstractFileArray.Rd
R.huge/man/writeValues.AbstractFileArray.Rd
R.huge/man/ncol.FileMatrix.Rd
R.huge/man/000-LB-.FileVector.Rd
R.huge/man/getFileSize.AbstractFileArray.Rd
R.huge/man/open.AbstractFileArray.Rd
R.huge/man/rownames.FileMatrix.Rd
R.huge/man/as.character.AbstractFileArray.Rd
R.huge/man/getSizeOfData.AbstractFileArray.Rd
R.huge/man/writeAllValues.AbstractFileArray.Rd
R.huge/man/readHeader.AbstractFileArray.Rd
R.huge/man/as.vector.AbstractFileArray.Rd
R.huge/man/000-LB-LT_-.FileVector.Rd
R.huge/man/000-LB-LT_-.FileMatrix.Rd
R.huge/man/finalize.AbstractFileArray.Rd
R.huge/man/flush.AbstractFileArray.Rd
R.huge/man/getDataOffset.AbstractFileArray.Rd
R.huge/man/FileMatrix.Rd
R.huge/man/getCloneNumber.AbstractFileArray.Rd
R.huge/man/getExtension.AbstractFileArray.Rd
R.huge/man/getName.AbstractFileArray.Rd
R.huge/man/delete.AbstractFileArray.Rd
R.huge/man/getStorageMode.AbstractFileArray.Rd
R.huge/man/getComments.AbstractFileArray.Rd
R.huge/man/rowMeans.FileMatrix.Rd
R.huge/man/dimnames.AbstractFileArray.Rd
R.huge/man/writeHeader.AbstractFileArray.Rd
R.huge/man/isOpen.AbstractFileArray.Rd
R.huge/man/getPath.AbstractFileArray.Rd
R.huge/man/readValues.AbstractFileArray.Rd
R.huge/man/FileVector.Rd
R.huge/man/getPathname.AbstractFileArray.Rd
R.huge/man/000-LB-.FileMatrix.Rd
R.huge/man/as.character.FileMatrix.Rd
R.huge/man/nrow.FileMatrix.Rd
R.huge/man/R.huge-package.Rd
R.huge/man/colnames.FileMatrix.Rd
R.huge/man/getBasename.AbstractFileArray.Rd
R.huge/man/clone.AbstractFileArray.Rd
R.huge/man/close.AbstractFileArray.Rd
R.huge/man/getSizeOfComments.AbstractFileArray.Rd
R.huge/man/rowSums.FileMatrix.Rd
R.huge/man/length.AbstractFileArray.Rd
R.huge/man/writeEmptyData.AbstractFileArray.Rd
R.huge/man/getByRow.FileMatrix.Rd
R.huge/man/as.matrix.FileMatrix.Rd
R.huge/man/readContiguousValues.AbstractFileArray.Rd
R.huge/man/dim.AbstractFileArray.Rd
R.huge/man/Non-documented_objects.Rd
R.huge/.Rinstignore