peak calling for TSS detection in bacteria

[pole_sana]

Hello

I try to detect transcription start site in a bacterial species. We enriched the 5' ends of the transcripts and sequenced them. Now I would like to deduce the TSS from that data.

Can anybody give me a hint what software is best suitable?

I found a lot about Chip-seq peak calling, although I'm not very familiar with Chip-seq, I think this is something a bit different.

All paper I checked (meanwhile this is done a lot) seems to do that manually but I really think there should be a better way.

thank you very much in advance.

[tir_al]

Have you tried checking papers from the Fantom consortium?

They deal primarily with CAGE data and have developed algorithms for TSS finding and annotation.

If you pubmed Carnici P., you can find loads of useful papers.