We integrated the work of the following people:

Korbinian Schneeberger, Joerg Hagmann, Stephan Ossowski, Felix Ott, Gunnar Raetsch
	- GenomeMapper 
	  (see Schneeberger, Hagmann, Ossowski et al, 2009, GenomeBiol)

Gunnar Raetsch
    - QPalma
	  (see De Bona, Ossowski, Schneeberger, Raetsch, Bioinformatics, 24 (16): i174, 2008.
	- QPalma/GenomeMapper integration
	- Code cleanup/porting to C++
 
Geraldine Jean
	- Banded spliced alignments in dyn_prog

Fabio De Bona, Uta Schulze, Bettina Hepp
    - QPalma
	- original spliced alignments in dyn_prog + infrastructure

Soeren Sonnenburg
	- Optimizations in Index access
	- Code in shogun/

Lisa Thalheim
	- Contributions to QPAlma/GenomeMapper integration

Dominik Diesch
	- Code cleanup/porting to C++

Andre Kahles
	- implemented option -log-triggered-reads
	- implemented SAM as output format
