Segemehl - map conversion to SAM

[Jonathan]

Hi all,
since I didn't find a single topic containing the 'segemehl' mapping software I don't have too high hopes, but anyhow:

Does anyone know of, or even has a tool for conversion of Segemehl mapping result files to the SAM format?

While I definitly like the speed and accuracy of the tool, the output is less than satisfying...

Best
-Jonathan

[serghei]

segemehl

Hi,
i am using segemehl to align quasispecies reads to the reference and i convert segemehl map file to our local format. i think it will be not hard to convert to sam format.

[Jonathan]

Nah, I never said it was hard to do - but the time, oh the time.
I guess you all know the rants... but it is still on my todo-list.

[david2]

Hi Jonathan,
I am also trying out segemehl on 454 data, have you finally written a converting tool from its output to SAM?
David