Sentence examples for using the bowtie software from inspiring English sources

The remaining reads were aligned to the pig genome (SGSC Sscrofa9.2/susScr2, Nov. 2009) using the Bowtie software (version 0.12.8) [ 18] with default parameters except maximum two mismatches, unique mapping, and trimming from 101 to 76 nt for the three samples.

These short reads were mapped using the Bowtie software and pre-built indexes for the most recent assembly of the C. elegans genome [71].

We evaluated this improvement by aligning independent Illumina libraries on the different reference transcriptome assemblies using the Bowtie software [ 7].

Reads from different samples were mapped on the pig genome (SGSC Sscrofa9.2/susScr2, Nov. 2009) using the Bowtie software (version 0.12.8) [ 18].

GA reads were aligned to the Saccharomyces cerevisae reference genome using the Bowtie software [ 68], allowing up to three mismatches per read.

Using the Bowtie software (v. 2.0.2), miRNA sequence reads were aligned to the rhesus annotated miRNAs in the miRBASE database (Release 19, http://www.mirbase.org/) and the frequency of reads that mapped uniquely to each miRNA was calculated.

We used the Bowtie software (v1.3) (http://bowtie-bio.sourceforge.net/index.shtml) to map quality filtered reads of 5Mg to the Chinese Spring 5A, 5B and 5D contigs separately.

The sequenced reads from each individual were mapped to the stickleback genome using the Bowtie 0.12.8 software [ 44].

The reads were mapped onto the latest A. millepora transcriptome assembly [ 20] using the Bowtie mapping software v0.12.7 [ 55].

bogorensis genomic DNA sequence and processed using the Bowtie and SAMtools software package.

Data from two publicly available short read libraries (NCBI Short Reads Archive accessions SRX759525 and SRX703650) from A. thaliana re-sequencing experiments were downloaded and mapped to the deposited reference genome TAIR10 (accessions NC_003070, NC_003071, NC_003074, NC_003075, NC_003076) using the Bowtie 2 plugin within the Geneious software, version 7.1.7 (http://www.geneious.com).