For batches with a large number of replicates and/or targets, the "peak areas" become less useful, as it becomes hard to visually evaluate the differences and the replicate / target labels are collapsed.

It is easy to zoom in on a subset of samples with ctrl-mouse wheel on the "replicate axis". It is also easy to quickly go through many samples with Ctrl-left and ctrl-right on the keyboard. However, when leaving the set of replicates onto which we are zoomed, the selection simply "leaves the window", i.e. we continue navigating through EICs but we don't see them in "peak areas". Also, selecting a replicate's EIC doesn't bring that replicate into the "zoom range" of the "replicate comparison" window.

It would be great if the range of visible samples would follow the selected replicate in a "moving window" kind of way. Also, if there was a scrollbar to move the window of selected replicates without having to zoom out and back in.

This is very hard to describe. Maybe I can make a screencapture to show what I mean, unless you already understand...

Note: the same applies to all of these replicate/molecule comparison views, like retention time, mass errors...