Assessing how similar/ different of activated pathways between multiple groups of samples

May I know are there is any bioinformatics package (or method) that can do a statistical test on two or multiple groups of pathway analysis.

I have 4 conditions:

1. Wild-type, control
2. Wild-type, treatment
3. knockout, control
4. knockout, treatment

I did RNAseq on these groups and did a pathway analysis on treatment vs control separately on wild-type and KO animals. I would like to know is there a way to quantitatively assess the difference between the activated (or inhibited) pathways between the wild-type and KO animals upon receiving the treatment?