In this paper we propose the FM-index of alignment, a compressed index for similar strings with the functionalities of pattern search and random access.
S2, S6, S8, and by applying a similarity measure of alignment index) but also to look for consistent large-scale results in the group level (for review on the importance of this approach combined with single subject analysis see [65]).
Whereas the anatomy-based alignment maximizes correspondence of indices of cortical curvature, our method maximizes correspondence of functional time-series for each cortical node.
Scaled log-likelihood score (i.e., the log likelihood divided by the length of the alignment), homoplasy index (HI) [ 27], rescaled consistency index (RC) [ 28], and average bootstrap support (over all internal vertices) were used to assess the tree stability while topological changes were described by split distance [ 29].
Alignment indexes of the test-retest comparison (Fig. 4G) were highly significant (right hemisphere 0.93±0.9, p<0.00001, left hemisphere 0.9±0.08, p<0.00001).
The similarity of the cross-correlation analysis and the phase analysis (Fig. 4G) results confirms that the two analyses yielded statistically similar cochleotopic gradients (alignment index of 0.88±0.16 for both hemispheres, p<0.00001).
downloaded all complete genome sequences of Bacteria, Virus from NCBI ftp site ftp://ftp.ncbi.nih.gov/genomes/; removed the plasmid sequence and any other non-human-related sequence; kept only one best genome sequence representing every species based on the assembly result; built the alignment index of reference sequence for classing sequence reads.
Mapping bias is well known for NGS, and highly polymorphic regions such as HLA genes are especially susceptible to its effects (Nielsen et al. 2011), particularly when a single reference genome is used as an index for the alignment of NGS reads.
Fig. 8 color-codes the flexibility index onto the structural alignment of the four bPBP homologs.
The similarity of two maps can be therefore evaluated by comparing the distribution of its alignment indexes to that of random maps.
