hdf5TFIDF {compartmap} | R Documentation

## Transform/normalize compartment calls using TF-IDF on HDF5-backed objects

### Description

Transform/normalize compartment calls using TF-IDF on HDF5-backed objects

### Usage

    hdf5TFIDF(h5, scale.factor = 1e+05, return.dense = FALSE, return.se = FALSE)

### Arguments

`h5` | SummarizedExperiment object, DelayedMatrix, or a normal matrix
`scale.factor` | Scaling factor for the term-frequency (TF)
`return.dense` | Whether to return a dense, in memory matrix
`return.se` | Whether to return the TF-IDF matrix as a new assay in the SummarizedExperiment

### Value

A TF-IDF transformed matrix of the same dimensions as the input

### Examples

    m <- 1000
    n <- 100
    mat <- round(matrix(runif(m*n), m, n))
    #Input needs to be a tall matrix
    tfidf <- hdf5TFIDF(mat)

[Package compartmap version 1.10.0 Index]