Z-score matrix checkpoint from the RNA-seq lesson

Gene-wise z-scores of the variance-stabilized expression (VST) computed in the lesson "De las cuentas de RNA-seq a la exploración de datos" (intro_RNAseq_es). Useful for heatmaps and clustering.

Format

A numeric matrix with 13,596 genes (rows) and 99 samples (columns).

Source

Generated from dds.

Details

This object is not installed with the package because of its size: get it with zscore_mat <- download_data("zscore_mat") (see download_data).

Steps: vst(dds, blind = FALSE), removal of genes with zero variance, and t(scale(t(...))) so that each gene has mean 0 and standard deviation 1 across samples.

The script that generates it is data-raw/lesson2_checkpoints.R.

See also

dds

Examples

if (FALSE) { # interactive()
zscore_mat <- download_data("zscore_mat")
dim(zscore_mat)
zscore_mat[1:4, 1:4]
}