tiledb (version 0.30.2)

fromSparseMatrix: Create (or return) a TileDB sparse array

Description

The functions fromSparseMatrix and toSparseMatrix help in storing (and retrieving) sparse matrices using a TileDB backend.

Usage

fromSparseMatrix(
  obj,
  uri,
  cell_order = "ROW_MAJOR",
  tile_order = "ROW_MAJOR",
  filter = "ZSTD",
  capacity = 10000L
)
toSparseMatrix(uri)

Value

Null, invisibly.

Arguments

obj

A sparse matrix object.

uri

A character variable with an Array URI.

cell_order

A character variable with one of the TileDB cell order values, default is “COL_MAJOR”.

tile_order

A character variable with one of the TileDB tile order values, default is “COL_MAJOR”.

filter

A character variable vector, defaults to ‘ZSTD’, for one or more filters to be applied to each attribute;

capacity

A integer value with the schema capacity, default is 10000.

Examples

ctx <- tiledb_ctx(limitTileDBCores())
if (FALSE) {
if (requireNamespace("Matrix", quietly=TRUE)) {
    library(Matrix)
    set.seed(123)      # just to fix it
    mat <- matrix(0, nrow=20, ncol=10)
    mat[sample(seq_len(200), 20)] <- seq(1, 20)
    spmat <- as(mat, "dgTMatrix")  # sparse matrix in dgTMatrix format
    uri <- "sparse_matrix"
    fromSparseMatrix(spmat, uri)   # now written
    chk <- toSparseMatrix(uri)     # and re-read
    print(chk)
    all.equal(spmat, chk)
}
}