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Using the BLOSUM62 alignment algorithm from CLCbio workbench (Aarhus, Denmark) the nucleotide sequences from SalI-L fragment of HHV-6A (X73675) [14], orf-1 6A) orf-1 6AI-L [14], dr6(6A) and dr7(6A) (NC_001664) [9] were aligned against dr6(6B) from HHV-6B (NC_000898)[8].
In the following, we create a GAP-L version of the Reeder Knight flowgram denoiser, using the basic pairwise alignment algorithm from Section 2.1 as starting point.
We used a different alignment algorithm from the algorithm used for the real dataset to show the compatibility of REDHORSE with different aligners.
Our contribution: we modify the tree alignment algorithm from Jiang et al. (1995) for edge similarities and local alignments, and analyze its running time.
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We applied a sophisticated genome-versus-genome comparison strategy that efficiently integrates the split-alignment algorithm from LAST [ 16] and the align-gap-excise algorithm from AGE [ 17], and subsequently implement an efficient method to initially identify various forms of structural variation and novel sequence from the assembly-versus-assembly alignment.
Second, we devise an interactive alignment algorithm for matching latent topics from multiple models, and enable sensitivity evaluation across a large number of models.
Sequence alignment was accomplished using the CLUSTAL W alignment algorithm accessed from the San Diego Supercomputing Center [65], [66].
The C_PBNA proposed in the paper is an advanced biological networks alignment algorithm derived from the PBNA [ 9].
Current alignment algorithms for registering range data captured from a 3D scanner assume that the range data depicts identical geometry taken from different views.
3DIM 2003 Current alignment algorithms for registering range data captured from a 3D scanner assume that the range data depicts identical geometry taken from different views.
MUSCLE was chosen from among many different sequence alignment algorithms for development of the SCOPPI database.
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