Sentence examples for using the trinity tool from inspiring English sources

The clean reads were assembled into contigs using the Trinity tool with the following parameters: seqType = fq, min_contig_length = 100, min_glue = 3, group_pairs_distance = 250, path_reinforcement_distance = 85, bfly_opts = ′-V 5 --edge-thr = 0.05 --stderr', min_kmer_cov = 3, CPU = 7 [ 79].

Second, we searched for intact open reading frames (ORFs) in these filtered house finch transcripts, using the Trinity tool suite and only transcripts with predicted ORFs longer than 300 bp were kept; we define this set as the unfiltered set.

In silico normalization using the Trinity normalization tool dramatically reduced the number of input reads into the assembly without adversely influencing the kmer abundance from those reads.

The clean reads of the three libraries were de novo assembled using the Trinity Program (V 2.2.0) with default parameters (Grabherr et al. 2011).

The transcriptome sequences were assembled using the Trinity program.

Lactate secretion was determined using the Trinity Lactate Kit (Trinity Biotech, Jamestown, NY, USA) according to the manufacturer's protocol.

The nine Illumina RNASeq data sets were assembled with Trinity [ 28] 2012-01-25p1 using trinitynity.pl wrapper and options '--bflyHeapSpace 15G' and '--no_meryl'.

De novo assembly of the clean reads was performed using the Trinity program [ 55].

All the reads were then assembled into 66,815 unigenes using the Trinity program [ 82].

Reads were de novo assembled into contigs using the Trinity suite [ 19].

High-quality clean reads were assembled de novo into contigs using the Trinity program.