i want to deeply analyse an expression compedium.
A part from the classical methods such as
1. plotting for each sample expression distribution via boxplot or density plots
2. clustering via PCA
3. producing expression heatmaps
i would be interested in other solutions that would allow me to discover biomarkers for a specific set of samples or exploring the variance of the gene expression in order to focus on specific sets of genes or, conversely, discard specific sets of genes that are not relevant in terms of expression changes across samples.
Thanks in advance