The accuracy of each contig sequence was judged to be excellent, as the contigs generally had a minimum depth of at least three ESTs and many had a depth of four to ten sequences.
We obtained good coverage for the majority of CpG sites for all nine samples, with 95% of all genomic CpGs sequenced at a minimum depth of 4, and 90% at a minimum depth of 9 (Additional file 1: Figure S2).
For VarScan 2, pileup data were generated from BAM files using Samtools [ 22] mpileup command (with –B parameter to disable BAQ computation), and the default parameters were used with the minimum read depth at 10, minimum base quality at 30; for GATK, UnifiedGenotyper was used for variant calling.
The minimum depth of the water at the walls is around 0.5 m and rock is placed at the toe of the wall to inhibit aquatic plant growth.
The notch reaches a minimum depth of 0.5 m at 24 hours, with a current of 0.9 m/s.
Because of particularly resistant bedrock, sections of the cable in New Haven Harbor could not be buried at the minimum depth required by permits, or 48 feet below sea level, said Rita Bowlby, a spokeswoman for Cross Sound Cable Company, which built the cable.
A maximum temperature of 242 °C was measured in well NWS-1 at a minimum depth of 832 m.
However, the methodological obstacles of doing developmental work on free-spawning mollusks that occur at a minimum depth of 175 m are formidable.
The Jacobsen's theory suggests that the field resulting from upward continuation to a level of Z focuses on sources situated at a minimum depth of Z0 = 1/2Z.
Given that both metagenomic datasets covered >67% of the Sulcia genome at a minimum depth of 20× (Figure S4, see Material and Methods for more details), we estimate that we would have found ∼60% of all SNPs at allele frequency 0.5 and 40% of all SNPs at allele frequency 0.25.
