Sentence examples for used for realignment from inspiring English sources

The Genome Analysis Toolkit v2.4.9 software (GATK) (McKenna et al. 2010) was then used for realignment, recalibration, and variant calling.

Thereafter GATK was used for realignment and recalibration of the bam files [ 37], and subsequent SNP calling was performed using SAMtools [ 38].

(25) To optimize 3D reconstruction, reprojection images were created from the 3D model and used for realignment of the original particle images.

Part of the right-of-way for the Delmar Bypass near Slingerlands was eventually used for a realignment of NY 140 named Cherry Avenue Extension.

After image reconstruction this three dimensional landmark was used for exact realignment of CT and SPECT images.

A 4th degree B-spline function without weighting and without warping was used for image realignment (head motion was less than 1-mm translations and 1°-rotations for all scans for all fMRI runs).

After slice-timing correction of the images, SPM2 [36]was used for image realignment, smoothing with a 3-D 9 mm isotropic Gaussian kernel, and normalization into the Montreal Neurological Institute averaged template based on structural MRIs from 152 brains.

The Genome Analysis Toolkit (GATK) [ 27] was used for indel realignment, SNP calling, and SNP filtering.

(20) Genome Analysis Toolkit(21) was used for local realignment and quality score recalibration.

GATK software tools (version 3.3.0; Broad Institute) were used for InDel realignment and variant calling (HaplotypeCaller), using default settings.

GATK v2.7-2 was used for indel realignment, variant calling by UnifiedGenotyper and variant quality filtering on hard filters as recommended for exome data.