Indirect validation for the experimental sample.
<p>We calculate the theoretical DNA barcode for the experimental sample, using the known DNA sequence as input [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0335633#pone.0335633.ref023" target="_blank">23</a>]. We then match all experime...
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2025
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| Summary: | <p>We calculate the theoretical DNA barcode for the experimental sample, using the known DNA sequence as input [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0335633#pone.0335633.ref023" target="_blank">23</a>]. We then match all experimental individual barcodes for the experimental sample against the theoretical barcode. We finally identify the part of the theoretical barcode corresponding to each barcode island. (A) Theoretical barcode associated with barcode island (1). (B) Block representation of barcode island (1). (C) Dot plot, which shows how the placement positions of the individual barcodes within each of the three barcode islands corresponds to the indirectly predicted ground truth positions. The x-axis is the starting position along the theoretical barcode, and the y-axis is the starting position along the barcode island after alignment to the theoretical barcode. Here as the indirect ground truth we take the optimal placement position of the individual barcode along the theoretical barcode. Some of the obvious false positives would be further removed if we removed the worst matching barcodes by using p-value thresholding for the placement along the theoretical barcode. See S13 Fig in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0335633#pone.0335633.s001" target="_blank">S1 Text</a> for the visualization of the overlap between barcode islands (1) and (2). S11 Fig in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0335633#pone.0335633.s001" target="_blank">S1 Text</a> shows visualization between the consensus and the theory barcode for the selected region.</p> |
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