Sentence examples for assembly criteria from inspiring English sources
All 3'-end ESTs remaining after filtering were clustered and assembled using CAP3 ([ 44]; assembly criteria: 95% identity, 40 bp window).
Because of the duplicated genome of salmonids, such stringent assembly criteria were necessary to reduce probabilities of assembling paralogous genes (Renaut et al. 2010).
When we analyzed the 147,146 hq 3'-end ESTs using the CAP3 program ([ 44]; assembly criteria: 95% identity, 40 bp window), 120,342 ESTs assembled into 19,941 contigs and the remaining 26,804 ESTs were classified as singletons, suggesting a combined total of 46,745 PUTs across Sitka spruce, white spruce and interior spruce (Table 2).
This paper describes a novel, hybrid design verification methodology that integrates model-based variability analysis with measurement data of assemblies, in order to reduce simulation uncertainty and allow early design verification from the perspective of satisfying key assembly criteria.
It is important to note here that the estimated number viral of genotypes presented for each library are theoretical "best guesses" and may vary depending on the assembly criteria used for modeling.
The assembly criteria were set as 40 bp overlap size and 90% identity between the reads.
Accordingly, we propose universal general dependences of mobility equations, total multiple joint factor, and assembly criterion for any valid planar, spatial, and hybrid open, closed, and mixed multiloop simple and multiple joint kinematic chains for the first time.
Each genome was sequenced to a high level of coverage (> 19x) and each draft genome was evaluated by the high-quality draft genome assembly criterion established by the Human Microbiome Project consortium [ 46].
We used CAP3 (Huang and Madan 1999) to merge assemblies, as was done for the Oxytricha MAC genome assembly, but instead of attempting to prevent collapse of all alleles, we chose a less restrictive assembly criterion: ≥40 bp matches that are ≥97% identity.
Candidates matching protein-coding sequences were removed based on the EST assembly criterion established by The Institute for Genomic Research TIGRR), in which the matching sequence was at least 40 nt in length and had at least 94% identity to be considered part of the identical transcript contig [ 16].
