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Calculation of the activity products and chemical affinities of reactions (Q r and A r in Eqn. M7) is implemented in the sequence of primary functions basis, species, affinity that is depicted in Fig. 1.
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Several extensions of the covarion model [ 17- 19] are implemented in the sequence generator seq-gen-aminocov [ 19].
Then, the anaglyph synthesis is implemented in the visualization of the 3D color video sequence on a standard display.
The database is implemented in the ARB software package (35) that allows for the compilation and association of aligned sequence data, sequence metadata and phylogenetic trees.
To assemble mate pairs with overlapping sequence, a standard overlap alignment algorithm was implemented in the form of a perl script to assemble sequences.
We demonstrate that back-processing of image data after a sequencing run is completed can recover lost sequence information, yet a preferred solution to this problem would be implemented in the real time sequencing software.
This approach has been implemented in the program MSASA (Multiple Sequence Alignment by Simulated Annealing).
CARMA3 is implemented in MetaSAMS (Metagenome Sequence Analysis and Management System), a software suited for the analysis of metagenome datasets.
SEAL is one of the best MapReduce based sequence aligners which is implemented in Python and runs on Hadoop platform.
The computation of rate and mutation profiles [ 15] along sequence alignments is implemented in TREEFINDER.
The filtered metagenome sequences of BGP_DF and BGP_WF were imported into MetaSAMS to apply CARMA3, which is implemented in MetaSAMS.
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