Sentence examples for assembler for from inspiring English sources

In this study, we focus on assessing the parameters that influence the selection of de novo assembler for assembling a given dataset.

Additionally, Trinity [ 102] has been shown to be the best SK assembler for transcriptome assembly [ 103].

In the single-end experiments, we used Escherichia coli and Bacillus cereus datasets of MiSeq, Velvet assembler for genome assembly, and GAGE benchmark tools for result evaluation.

Rather than using a single assembler for the hybrid assembly, it is crucial to develop a suitable strategy by using several assemblers for the assembly of combination of different types of sequencing reads.

Newbler [ 15] was chosen as the assembler for the final assembly since the majority of the sequencing data came from the Roche/454 platform with relatively longer read length, especially for single end reads [ 16].

The rapidly growing number of WGS sequencing projects can take advantage of our results and proposed methodology to choose an appropriate assembler for best quality assemblies based on available computational resources.

Although there are many assemblers for assembling reads from a single genome, there are no assemblers for assembling reads in metagenomic data without reference genome sequences.

Recommended assemblers for different assembly processes are shown in Table 1.

Newbler is currently the only transcripome assembler that attempts this task, and is one of the mostly widely used assemblers for de novo assembly of organisms with few genomic recourses [ 39].

MIRA, version 3.4.0, was used for the assembly of the 454 data sets, as simulation results with in silico generated 454 reads show it is one of the best assemblers for the de novo assembly of transcriptomes [ 62].

We evaluated several assemblers for the de novo assembly of the E. fischeriana root transcriptome, including Oases [ 16], Velvet [ 27], QSRA [ 28], Euler-SR [ 29], Edena [ 30] and SOAPdenovo [ 31].