Average plot using all groups

[raquelgarza]

Hi,

Thank you for the fantastic software!

I was wondering if there is a way in PlotHeatmap of plotting the average line plot using all groups instead of separately by group?

So far I need to keep the two matrices - one with and the other without the groups. From the matrix with groups I plot the heatmap, and using the matrix without the groups I plot the line plot. I'm thinking I probably am not be the first person wishing for this to be an option, so I thought I would leave it here as a suggestion :-)

Best,

[xubeisi]

@raquelgarza try my version at https://github.com/xubeisi/deepTools/commit/4e19dcbb4c79be497c306be928280165c74101f3 only for with "plotProfile --perGroup", use something like "--repgrplist WT WT KO KO" to define the group for each sample.

worked for --plottype se or std. They take the values after --averagetype and average across samples within each group (assume they are replicates) defined by --repgrplist. The se and std were the variable between samples(replicates)