<![CDATA[BOL: AnchorWave]]> https://bioinformaticsonline.com/bookmarks/view/43795/anchorwave? https://bioinformaticsonline.com/bookmarks/view/43795/anchorwave Wed, 23 Feb 2022 08:14:35 -0600 https://bioinformaticsonline.com/bookmarks/view/43795/anchorwave <![CDATA[AnchorWave]]> AnchorWave (Anchored Wavefront Alignment) identifies collinear regions via conserved anchors (full-length CDS and full-length exon have been implemented currently) and breaks collinear regions into shorter fragments, i.e., anchor and inter-anchor intervals. By performing sensitive sequence alignment for each shorter interval via a 2-piece affine gap cost strategy and merging them together, AnchorWave generates a whole-genome alignment for each collinear block. AnchorWave implements commands to guide collinear block identification with or without chromosomal rearrangements and provides options to use known polyploidy levels or whole-genome duplications to inform alignment.

Address of the bookmark: https://github.com/baoxingsong/AnchorWave

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