Dear Dario
These all look like legitimate suggestions, and probably the package author has
something to say on their substance.
But independent of the specifics here, I think we should also keep in mind that
the motivations for package submission vary across the project.
Some contributors
Hello,
The package FlipFlop is made for isoform quantitiation. Why are there no
options to specify the RNA-seq read strand ? Otherwise, the method produces
incorrect counts where overlapping genes on both strands are being transcribed.
Also, the software requires a SAM file as input. This is
