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This allows VarSim to validate alignments overlapping the breakpoints of SVs.
The curvature alignment across the subjects reached 100% subject overlap for most of the calcarine sulcus as well as other sulci, validating alignment success (Supplementary Fig. 5A).
When the interaction orientations of subunits are conserved between S/D-homologous complexes, these indirect alignments provide a coarse way of validating alignments from direct methods like Galinter and I2I-SiteEngine.
VarSim validates alignments via meta-data stored in the read name.
The probes were designed either from an aligned fragment in the optical map (green boxes), or from a non-aligned fragment (white boxes) to validate the alignment pattern.
Section 4.5 uses real images to validate the alignment accuracy of the proposed system.
In the second [30], Kleinstiver et al. used increased local covariation to validate an alignment of the GIY-YIG homing endonuclease I-Bmol, and prevented contamination by paralogous sequences.
RTOP scores were used to validate the alignment of the 10 COPUS profiles with reformed teaching.
It uses the distance between the tags of a pair to validate the alignment on a fusion.
Similar to BaliBase, a reference dataset exists to validate ncRNA alignment methods, called BraliBase (Wilm et al., 2006).
In all cases, biocurators validate each alignment to assess whether similarity is appropriate to infer the gene product's function.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com