Sentence examples for mapping efficiency for from inspiring English sources

For comparing the unique mapping efficiency for converted and unconverted reads, 50 bootstrap replicates with replacement were created from all of the mouse data (both differentiating and undifferentiated).

Results: We present the mapping software, named PerM (Periodic Seed Mapping) that uses periodic spaced seeds to significantly improve mapping efficiency for large reference genomes when compared with state-of-the-art programs.

As for Tag-seq data, the low mapping efficiency for DGE was the main problem that only a quarter of all DGE tags were mapped to the reference genes (Table  1).

To study the mapping efficiency for this group of genes, we compared the number of reads captured for the HLA-DRB1 gene using a traditional single reference-based mapping method and the CRP-based mapping developed in this study, using BWA as the mapping tool in both cases.

Further improvements of across-breed accuracy of genomic predictions and QTL mapping could be achieved by increasing the size of the reference population, including more breeds, and possibly by exploiting pleiotropic effects to improve mapping efficiency for QTL with small effects.

The simulated reads were then mapped to the reference transcriptome using Stampy [ 68] as described above and the proportion of fragments that could be mapped to the correct gene (referred to as mapping efficiency) was recorded for the African and European strains for each gene.

The overall mapping efficiency also improved for the allopolyploid reads ince allopolyploid reads included both AT-genome and DT-genome reads.

The dcpm values are comparable between all RNA-seq datasets, since it normalizes for differences in mapping efficiency and number of reads generated.

Sequencing runs and subsequent mapping of reads to the respective reference genomes are shown in Additional file 2. In summary, we could uniquely align 147 million out of 161 million reads for annotation purposes (mapping efficiency >91%, Additional file 2).

In terms of relative amount of mapped reads, some cultivars show a very low performance, e.g. for the Kozma cultivar mapping efficiency was about 77 %.

To check for and ascertain best mapping efficiency, all MEBS reads were mapped to those reference sequences using Bismark (see Additional file 2: Table S2).