Sentence examples for realignment of local from inspiring English sources

This is the eventual upshot of this realignment of local government's priorities, this doomed attempt to do good deeds by stealth – little more than skyscrapers in exchange for bus stops.

To that end, realignment of state and local revenue and responsibilities is key to renovating a system that has become over-centralized in the years since Proposition 13.

The pipeline consisted of local realignment around INDELs (RealignerTargetCreator and IndelRealigner), quality score recalibration (CountCovariates and TableRecalibrator) and finally variant calling (UnifiedGenotyper).

Mapping was improved by two rounds of local realignment.

Use of local realignment and BAQ in the same processing pipeline should be avoided.

Genome analysis toolkit 1.4 (GATK) (Nekrutenko and Taylor 2012) was used to perform local realignment of reads to correct misalignments due to the presence of indels ("RealignerTargetCreator" and "IndelRealigner" arguments).

Following this initial identification step, local realignment of reads spanning the InDel occurs [ 14].

Moreover, to reduce the problems of misalignments, local realignment of reads with InDels have been suggested and to minimise the detection of false positives due to other factors, stringent criteria for post-alignment filtrations needs to be applied [ 25].

Variant calling was performed using GATK UnifiedGenotyper v2.7 after removing duplicate reads, local realignment of indels and base-quality-score recalibration.

This procedure is similar to the functional cortex-based alignment procedure (Frost and Goebel 2013) and uses an anatomical definition of a region of interest to optimize the local realignment of this region rather than a global realignment of the entire cortex.

The resulting variant list served for base quality recalibration and local realignment of the combined (J5/SC) BAM file using utilities of the Genome Analysis Toolkit (GATK) package [ 17]. (2) For SNP discovery, read-type (J5 and SC respectively) specific variants were called from the cleaned J5SC BAM file in two independent steps using the SAMtools pileup command.