Sentence examples for popular alignment from inspiring English sources
Although CLUSTALW is still the most popular alignment tool to date, recent methods offer significantly better alignment quality and, in some cases, reduced computational cost.
Such a service was first offered by the SOAP program, which tests the robustness of each column to perturbation in the parameters of the popular alignment program CLUSTALW.
MSA was conducted using 11 popular alignment algorithms.
Some of the most popular alignment programs used for RNA-seq include Bowtie/TopHat [ 25], BWA [ 28], and STAR [ 29].
Considering the results of the benchmark analysis, we can conclude that HIA performs comparably to four popular alignment tools.
Mah et al. conducted rigorous experiments to compare popular alignment tools MAQ, SOAP2, BWA and Bowtie with BLAST results as the benchmark.
For generic sequencing alignments, popular aligners have included ClustalW [7], MAFFT [8], and MUSCLE [9].
Multiple alignments of protein sequences were constructed using the M-Coffee web server (http://tcf_dev.vital-it.ch/apps/tcoffee/play?name=mcoffee), which combines the output of several popular aligners into one single multiple sequence alignments.
A common and popular structural alignment method is the DALI, or distance alignment matrix method, which breaks the input structures into hexapeptide fragments and calculates a distance matrix by evaluating the contact patterns between successive fragments.
Popular sequence alignment tools such as BLAST cannot align short sequences with specific bulges or mismatch configurations [ 46].
To define the discontiguous sequence similarity of two regions R and R', S R, R'), we first applied a popular local alignment software package called CHAOS [ 46] for aligning R and R'.
