Conflict with kube-prometheus when installing metric-server

Question

I use AWS EKS environment, and I have https://github.com/prometheus-operator/kube-prometheus installed for monitoring. I'd like to get autoscaler installed where one of the prerequisites is https://github.com/kubernetes-sigs/metrics-server.

I first did

kubectl diff -f https://github.com/kubernetes-sigs/metrics-server/releases/latest/download/components.yaml

just to understand the diffs before applying. Then I find kube-prometheus and metrics-server conflict in two places:

1. apiservices.apiregistration.k8s.io/v1beta1.metrics.k8s.io

2. clusterrole/system:aggregated-metrics-reader

My questions are:

What are my options if I'd like to get metric-server installed along with kube-prometheus? Should I override or merge? Is that a bad idea?

Thanks!