Sentence examples for coverage to call from inspiring English sources

With the advances in sequencing throughput, the entire genome of an individual can be resequenced with sufficient coverage to call changes with high reliability [ 4], or sequencing can be targeted to the exome by capture with complementary oligonucleotides [ 5].

First, the exome sequencing that produced the variants for analysis was research-grade rather than clinical-grade and therefore not all exons in the 56 recommend genes had sufficient sequence coverage to call variants in all individuals.

The minimum read coverage to call a methylation status for a base was set to 5, and the minimum phred quality score to call a methylation was set to 20.

To ensure enough coverage to call all heterozygous sites in each block and to remove possible copy number variants (Paudel et al. 2013), we filtered out blocks with an average coverage <7× or higher than twice the genome-wide average, using the pileup format in SAMtools v0.1.12 (Li et al. 2009).

Our experimental design of applying RNA-seq to pooled RNA from a large number (90) of mosquitoes sampled at two different conditions (after blood-feeding and under sugar-feeding) was a cost-efficient way to obtain enough depth of coverage to call single nucleotide variations with confidence within a strain.

The reads and contigs were then assembled and edited using Sequencher v.4.2.2 software (Gene Codes Corporation, MI), with at least 6X coverage necessary to call a region (although some DBLα regions with partial low coverage were used if the regions proved to be unique).

Complaining about desperate news coverage is to call foul on a game that is actually just playing by a different set of rules.

The minimum coverage allowed to call a SNP was of 15 reads for a given base.

We evaluated all three algorithms and found no significant difference in the number of orthologous gene clusters predicted by them, so we adopted OrthoMCL algorithm for this study with option -E (expectation value for BLAST alignments) set at 1 e-05 and option -C (minimum percentage of coverage required to call two sequences best hits) set at 75%.

Two rounds of sequencing were necessary to achieve sufficient depth of coverage to accurately call genotypes in the offspring.

Exome sequencing is also more costly because the cost to sequence the exome at a high enough depth of coverage to accurately call variants is much higher than for the targeted panel.