Sentence examples for minimum allele call from inspiring English sources

The constraints of minimum allele call score of 10 at the SNP position and minimum read depth of 3 were imposed to filter SNPs.

The user can choose the minimum allele frequency to call the allele composition.

Variants within the 56 genes recommended by the ACMG were considered if they had at least one minor allele call with a minimum coverage of 20 and a minimum mean probable genotype (mpg)/coverage ratio of 0.5.

Since we were dealing with a haploid genome, and since heterozygous sites were unexpected, we used a minimum allele frequency threshold of 80% to call the alleles.

In our biallelic loci, by convention we specify the smaller of the two allele frequencies and call this the minimum allele frequency.

The SNPs were included only if they met the following criteria; call rate >90%, minimum allele frequency >5%, and did not have extreme Hardy Weinberg (HWE) χ2 values (>600).

Our settings generally retained potential SNPs with read quality scores equivalent to a Phred score of 20 and a minimum of 2 reads covering each variant allele call.

We found that using a minimum allele frequency of 10% worked well for variants called from exome sequencing of a homogenous population of cells, such as a cultured cell line.

SNPs were filtered using various quality control criteria as, build changes, call rate, compliance with Hardy Weinberg and minimum allele frequency (MAF) as described in Additional file 1.

Exclusion criteria for the IHMP SNPs were deviations from Hardy-Weinberg (H W) equilibrium p-value<0.001 p-value<0.001pe calowrates (≤50%), Mendelian inheritance errors (>0) and low minimum allele frequency (<5%).

Proper filter setting with minimum allele percentage for heterozygous sites was essential to minimize the false positive calls in the detection pipelines without mapping quality; however, this filtering causes a serious loss in detection sensitivity.