Sentence examples for using the trinity software from inspiring English sources

The HQ reads of each sample library were assembled using the Trinity software [ 20] and the TGI Clustering Tool TGICLL) [ 21], followed by the Phrap assembler [ 22] to remove redundant Trinity-generated contigs.

74 million sequences were generated and assembled into 96,492 contigs using the Trinity software suite.

Reads combined from all light organ and non-light organ samples were assembled using the Trinity software package [ 50].

Using the Trinity software, we assembled the pooled reads into a transcriptome [ 20, 21], as no reference genome is yet available for Aurelia.

Illumina deep sequencing of the libraries yielded about 280 million paired-end reads that were combined, quality filtered, and de novo assembled using the Trinity software [ 30, 31].

De novo assembly of RNA-seq data was carried out using the Trinity software package [ 42] with the maximum length expected between fragment pairs set to 300.

We used the Trinity software (release-20121005) [ 20] for de novo assembly of the high-quality cleaned reads, and then used TGICL [ 21] followed by the Phrap [ 22] assembler to remove the redundant Trinity-generated contigs.

Reads were quality-filtered prior to assembly to include only sequences with a Q20 value in greater than 90% of bases, and these reads were used to perform a de novo transcriptome assembly using the TRINITY (r2012_10_05) software package using default settings (Broad Institute, Boston, MA) [ 100].

We obtained 120,426 contigs (≥200 bp) using the Trinity assembly software.

Using the Trinity assembler software [ 28], short-read sequences from A. konjac and A. bulbifer were assembled into 187,459 contigs and 199,259 contigs, respectively (Table  1).

Because of deficiencies in the reference genome sequence, these reads were de novo assembled using the Trinity platform software, resulting in 186,632 unigenes with N50 length of 743 bp, of which 89,672 unigenes were annotated after Blast searches of the GenBank Nr, SwissProt, KEGG, COG and GO databases.