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For somatic translocations, the normal and the tumor sample are called separately and regions of overlap are eliminated.
For somatic translocations, the germline and the tumor sample are called separately and regions of overlap are eliminated.
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It is called separately continuous if for each and the maps from into and the map from into are continuous.
Additionally, indels were called separately from SNVs where possible.
All samples in each data set were analyzed together but each data set was called separately.
Initially, SNPs of C1184 and C1234 relative to the reference genome were called separately.
When using optiCall, we recommend that divergent populations (such as African-Americans and white Europeans) be called separately so population specific within and across sample priors are used.
Altogether, we included the following methods for comparison (for corresponding command lines for calling the five algorithms, see Additional file 1): 1. NaiveSubtract — SNVs were called separately from virtual tumor and normal samples using GATK UnifiedGenotyper [ 22].
Because CD-HIT greedily adds proteins to a family, this approach groups protein fragments together that might have been called separately because of frame shift errors that were missed in the automated annotation.
Variants were called separately for each sample by GATK UnifiedGenotyper using default parameters only in regions from a list of genes compiled from literature associated with dengue competence and insecticide resistance (Supporting Information, Table S1).
During these 21 days, all physicians, advanced practice providers (APP), charge nurses, flow coordinator nurses and triage nurses were called separately every 2 h by a dedicated UCC clerk and asked to report their perception of the current UCC crowding status.
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