ps_gg_align_test

ps_gg_align_test, a Fortran90 code which calls ps_gg_align(), which implements global string alignment algorithms which work in linear space, and compute both the optimal score and the optimal alignment. Gaps in the alignment are assigned an affine gap penalty. The algorithms are due to Chao.

Licensing:

The information on this web page is distributed under the MIT license.

Related Data and Programs:

ps_gg_align, a Fortran90 code which implements global string alignment algorithms which work in linear space, and compute both the optimal score and the optimal alignment. Gaps in the alignment are assigned an affine gap penalty. The algorithms are due to Chao.

Source Code:

• ps_gg_align_test.f90, a sample program to read a profile scoring data file.
• ps_gg_align_test.sh, commands to compile, link and run the source code.
• ps_gg_align_test.txt, output from running the sample program.

• profile.txt, a sample profile scoring data file.