Sentence examples for using the genome analysis from inspiring English sources

SNP and InDel calling was performed using the Genome Analysis Toolkit (GATK, version 2.4-9 52.

SNP calling was subsequently performed using the genome analysis toolkit Unified Genotyper (GATK-UG) algorithm (DePristo et al. 2011).

SNP calling was based on alignment using the Genome Analysis Toolkit 2.0-35 2.0-35 and Picard packaGATK1.71 [ 16].

Determination of heterozygous positions between alleles was performed using the genome analysis toolkit (GATK) Unified Genotyper (31).

Sequence realignment around insertion/deletions (INDEL) and variant calling was done using the Genome Analysis Toolkit v1.6.

Base quality score recalibration was performed using the Genome Analysis ToolKit (GATK) [ 18] and QC Failure reads were removed.

We analyzed the SNPs in Lac and Pgl genomes using the same protocol, in which we mapped the sequence reads to the genomes and detected SNPs using the Genome Analysis Toolkit [ 62].

In total, 4,781,758 SNPs were identified in the Hanwoo genome using the Genome Analysis Tool Kit (GATK) 1.0.5974 [ 15, 16].

Secondary analysis was conducted using the Genome Analysis Toolkit for SNP discovery l and wANNOVAR for functional analysis of variants.

Secondary analysis was conducted using the Genome Analysis Toolkit (GATK) (http://www.broadinstitute.org/gatk/) embedded in the SMRT Portal.

Variant Call Files from Aarhus University and the 1,000 Bull Genomes project were combined using the Genome Analysis Toolkit's CombineVariants with precedence given to calls from the Nordic dataset for animals appearing in both datasets.