Jira REST API Custom Authentication

We are working on a C# application that will interface with the Jira REST API.  Our server relies on mutual client-server certificate authentication.  Due to this, we will not be able to do username/password or cookie based authentication and OAuth seems to be for server to server communications through application links in Jira.

We would like to know if there is any way to provide a custom authentication to the Jira REST API such as certificates.  I have seen that there is a JiraRestSeraphAuthFilter in the jira-rest-plugin but do not see a way to write a seraph filter just for the REST API.  For our normal authentication, we did not use a seraph filter and instead wrote a plugin that presents the user with a login page and logs in based on certificate.

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