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picture1_Pairwise Sequence Alignment Slideshare 66797 | Presentation V1


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File: Pairwise Sequence Alignment Slideshare 66797 | Presentation V1
pwa vs msa pairwise sequence alignment pwa is much faster and has very high correlation with multiple sequence alignment msa 1 2 msa swg nw 1 n0 8 o i ...

icon picture PPTX Filetype Power Point PPTX | Posted on 27 Aug 2022 | 3 years ago
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                                       PWA vs MSA
       • Pairwise sequence alignment (PWA) is much faster 
            and has very high correlation with multiple 
            sequence alignment (MSA).
                                   1.2         MSA        SWG       NW
                                     1
                                  n0.8
                                  o
                                  i
                                  t
                                  a0.6
                                  l
                                  e
                                  r
                                  r
                                  o0.4
                                  C
                                   0.2
                                     0
                                        599nts 454 optimized          999nts
                                   The comparison using Mantel between 
                                   distances generated by three sequence 
                                       alignment methods and RAxML 
          Summarize a million Fungi Sequences
              Spherical Phylogram Visualization
      RAxML result visualized in FigTree.               Spherical Phylogram visualized in PlotViz
                                       MDS methods
        • Sum of branch lengths will be lower if a better 
            dimension reduction method is used.
        • WDA-SMACOF finds global optima
                    599nts with 454 optimized                                        999nts
           30    WDA-SMACOF LMA EM-SMACOF                           25  WDA-SMACOF LMA EM-SMACOF
           25                                                       20
           20
         m                                                        m 15
         u                                                        u
         S 15                                                     S
                                                                   
         e                                                        e
         g                                                        g 10
         d 10                                                     d
         E                                                        E
            5                                                        5
            0                                                        0
                    MSA            SWG            NW                        MSA           SWG            NW
                 Sum of branch lengths of the SP generated in 3D space on 599nts dataset 
                 optimized with 454 sequences and 999nts dataset
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...Pwa vs msa pairwise sequence alignment is much faster and has very high correlation with multiple swg nw n o i t a l e r c nts optimized the comparison using mantel between distances generated by three methods raxml summarize million fungi sequences spherical phylogram visualization result visualized in figtree plotviz mds sum of branch lengths will be lower if better dimension reduction method used wda smacof finds global optima lma em m u s g d sp space on dataset...

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