Sentence examples similar to software for alignment of from inspiring English sources

Here we describe a software package for alignment of biomolecular networks based on a hybrid method developed in [ 28], GraphAlignment, and compare it to the algorithm Græmlin 2.0.

Subsequently, in-frame alignments from start to stop codon were performed using a codon empirical model with PRANK v.140110 (Löytynoja and Goldman 2005, 2008), which has been shown to outperform other alignment software for alignments of codon blocks and, in particular, generates less false-positive cases in selection analysis (Fletcher and Yang 2010).

Following the trimming [ 73] of adapters, the data was analyzed using the Rockhopper software [ 74] for alignment of reads to the reference genome, data normalization, differential expression, TSS prediction, and operon organization.

The first SNP prediction method, for testing and validation involved the use of GMAP software [ 13] for alignment of unique PI 468916 short sequence reads to the Williams 82, preliminary 4× scaffold assembly, with SNPs predicted from the alignments.

Particular focus areas include the development of software for the alignment of apicomplexan sequences [ 8] which have an unusual sequence composition, software for the identification of gene regulatory modules from microarray data [ 9], and software for the identification of taxonomic identity from metagenomic samples [ 10].

Inclusion of more specimens, sequencing of longer 16S fragments, and the use of more advanced software for alignment and phylogenetic inference (see methods) removed this incongruence.

Bowtie2 v2.1.0 alignment software [ 54] was used for alignment of the generated RNA-seq reads with requirements of a perfect end-to-end and gapless alignment of seed substrings of 32-mers.

DIALIGN is a widely used software for multiple alignment of nucleic acid and protein sequences [ 1, 2] that combines local and global alignment features.

GMAP software [ 13] was used for alignment of the 33 bp PI 468916 Illumina Genome Analyzer reads with the Williams 82 preliminary 4× scaffold assembly for the discovery of putative SNPs.

The ClustalW program was used (http://www.ch.embnet.org/software/ClustalW.html) for alignment of the obtained sequences with genotype 4 prototype.

Detailed table list with the best inferred substitution models using JModelTest software for the alignments of the sequence data generated in this study for UL18, UL22, UL27 markers and for the alignment of the same dataset for UL27 plus all the available sequences at GenBank database.