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The applied alignment time correction is indicated by the number next to the seismogram.
The according equal error rates can be seen in Table 4. Figure 11 Results of experiment 3. ROC curves of the proposed identification system for alignment using manually annotated coordinates of both eyes and mouth (blue solid line), automatically detected eyes (red dashed line), and without applied alignment (green dash-dotted line).
These were observed with all applied alignment algorithms and even with relatively high coverage values.
Most available tools (e.g. VariationHunter, TEA) do not accept out-of-the-box BAM alignment files as produced by widely applied alignment tools like bwa, bwa-mem and bowtie1/2.
Jitterbug can be easily integrated into existing NGS analysis pipelines, using the standard BAM format produced by frequently applied alignment tools (e.g. bwa, bowtie2), with no need to realign reads to a set of consensus transposon sequences.
These pools were subsequently mapped back to their corresponding reference sequences using commonly applied alignment software and at a range of ultra-low to moderate sequencing coverage depths (0.1×, 0.5×, 1×, 2×, 4×, 8× and 16×).
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For each of the 218 reference alignments in the benchmark, we applied eight alignment programs, resulting in a total of 1744 automatically constructed MSAs.
Finally, we applied an alignment quality filter to the reads in U, discarding all alignments with a BLAST identity score lower than 95% and hs less than 80%.
However, unlike a scoring structure, PAT is applied after alignment and therefore cannot result in the aligner exploring possible extensions into an overlap but instead favors a shorter local alignment with a higher cumulative score.
Furthermore, we applied 3D alignment using the maximum common subgraph.
Figure 3 illustrates the applied face alignment procedure for an example image.
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