append2H5: Append Matrix to HDF5 File

In girke-lab/signatureSearch: Environment for Gene Expression Searching Combined with Functional Enrichment Analysis

Append Matrix to HDF5 File

Description

Function to write matrix data to an existing HDF5 file. If the file contains already matrix data then both need to have the same number of rows. The append will be column-wise.

Usage

append2H5(x, h5file, name = "assay", printstatus = TRUE)

Arguments

x	matrix object to write to an HDF5 file. If the HDF5 file is not empty, the exported matrix data needs to have the same number rows as the matrix stored in the HDF5 file, and will be appended column-wise to the existing one.
h5file	character(1), path to existing HDF5 file that can be empty or contain matrix data
name	The name of the dataset in the HDF5 file.
printstatus	logical, whether to print status

Value

HDF5 file storing exported matrix

Examples

mat <- matrix(1:12, nrow=3)
rownames(mat) <- paste0("r", 1:3); colnames(mat) <- paste0("c", 1:4)
tmp_file <- tempfile(fileext=".h5")
create_empty_h5(tmp_file)
append2H5(mat, tmp_file)
rhdf5::h5ls(tmp_file)

girke-lab/signatureSearch documentation built on Feb. 21, 2024, 8:32 a.m.