Hi Jonas,

I've used TRANSIT before with good results. It can handle Tn5 and mariner transposon insertion data. But you need fairly high insertion density for accurate predictions, otherwise many of your genes may be called as uncertain.

You can find the software here:

https://github.com/mad-lab/transit

Or run it through Galaxy:

https://usegalaxy.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Ftransit_tn5gaps%2Ftransit_tn5gaps%2F3.0.2%2Bgalaxy1&version=3.0.2%20galaxy1

A detailed description of the tool is here:

Chapter Analysis of Gene Essentiality from TnSeq Data Using Transit

Hope this helps,

Andrew