GitHub - pombredanne/libgapmis: An ultrafast library for pairwise short-read alignment, based on GapMis, including accelerated SSE-based and GPU-based versions.

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An ultrafast library for pairwise short-read alignment, based on GapMis, including accelerated SSE-based and GPU-based versions.

GPL-3.0 license

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Name		Name	Last commit message	Last commit date
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examples		examples
m4		m4
man		man
src		src
AUTHORS		AUTHORS
COPYING		COPYING
ChangeLog		ChangeLog
INSTALL		INSTALL
Makefile.am		Makefile.am
Makefile.in		Makefile.in
NEWS		NEWS
README		README
aclocal.m4		aclocal.m4
config.guess		config.guess
config.h.in		config.h.in
config.sub		config.sub
configure		configure
configure.ac		configure.ac
depcomp		depcomp
install-sh		install-sh
ltmain.sh		ltmain.sh
missing		missing

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libgapmis is an ultrafast library for pairwise short-read alignment, based on
GapMis, including accelerated SSE-based and GPU-based versions. For more
information visit http://sco.h-its.org/exelixis/gapmis/.

For installation instructions check the file INSTALL.

To use the library on general-purpose CPUs, include gapmis.h and link using
-lgapmis. You may link with -lgapmis -static to statically link the library
to your binary. In case of a dynamic linkage, specify the library path in
$LD_RUN_PATH or $LD_LIBRARY_PATH.

To use the library on CPUs with SSE instruction set, include gapmis.h and link 
using -lgapmis_cpu -lgapmis_sse. To use the library on GPUs, include gapmis.h 
and link using -lgapmis_cpu -lgapmis_gpu. The same notes for static and dynamic
linkage apply for both optimised versions.