GitHub - robbueck/hmm_aligner_cpp: short HMM aligner · GitHub

Name		Name	Last commit message	Last commit date
.settings		.settings
Release		Release
.cproject		.cproject
.project		.project
README.txt		README.txt
file_r_w.cpp		file_r_w.cpp
file_r_w.h		file_r_w.h
in_pairs.txt		in_pairs.txt
main.cpp		main.cpp
main.h		main.h
sequenc_pair.cpp		sequenc_pair.cpp
sequence_list.h		sequence_list.h
sequence_pair.h		sequence_pair.h
viterbi.cpp		viterbi.cpp
viterbi.h		viterbi.h

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This is a simple pairwise aligner using an HMM
compile with:
cd Release; make 
run:
./alignment_model -f ../in_pairs.txt

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short HMM aligner

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