Comparing Deviation scores across samples

[rohitrrj]

Hi, I am comparing deviation scores for each motif across samples. However I realized these might be biased as I see some samples have generally higher values. You mention these are correlated with read depth, does this mean that the scores are not corrected for read depth. Should I be scaling them before plotting them in heatmap? How do you usually normalize these scores? Thank you.

[Brawni]

Hi,

I would too be interested in this issue.

Cheers!

[sabrinacamp2]

Hi,

I am also seeing this, some samples have higher motif scores for all motifs tested. Is there a way to normalize these scores using relevant factors?