Sentence examples for using the progressive algorithm from inspiring English sources
Genomes were aligned with the open-source MAUVE aligner version 2.3.1 using the progressive algorithm.
Chromosomal rearrangements were explored using the progressive MAUVE algorithm as implemented in Mauve v2.3.1 [ 163].
Multiple genome alignments were also constructed by using the progressive alginment algorithm of the Mauve 2.3.1 (http://asap.genetics.wisc.edu/software/mauve/) with default options [ 54].
The Bryopsis and Tydemania cpDNAs were aligned using the progressive Mauve algorithm in Geneious using the full alignment option and automated calculation of locally collinear block (LCB) scores [ 58, 79].
We aligned 453 bacteriophage genomes, including PAD20 and PAS50, using the progressive Mauve algorithm [ 39] in order to investigate how the P. acnes phages were related to other phages.
As we found out that in the annotated results from PGAAP some coding genes are missing, we did manual curation based on blast searches using known coding nucleotide sequences, the location of the missing coding sequences are given in Additional file 9. Multiple genome alignments were computed by using the progressive Mauve algorithm of the Mauve software [ 13] with default options.
Instead, we used the progressive Mauve algorithm, which is developed to be able to align more diverged genomes with less than 50% nucleotide identity.
The genome and plasmid sequence accession numbers are listed in Table 2. Plasmid and genome DNA sequences were aligned using MUSCLE v3.52 [ 42] and the progressive algorithm of Mauve [ 43] respectively, using default parameters.
The Progressive algorithm used the idea of this paper [16] of omnidirectional networks for the problem of MDCS.
As a reference, we use the progressive edge growth (PEG) algorithm for the design of unstructured LDPC codes and compare its performance with that of four approaches for designing structured LDPC codes.
The progressive algorithm is proposed to overcome the inefficiency of the heuristic algorithm.
