... file . ... annotate . ... BurkovBA@0 . ... 5 import project . ... 6 import sequence . ... 9 class Block ( object ): . ... 12 * self.project -- project object, which the block belongs to . ... 13 * self.sequences - set of sequence objects that contain monomers . ... 22 >>> block1 = block.Block(proj, proj.sequences, range(len(proj.alignment[proj.sequences[0]]))) . ... 26 def __init__ ( self , project , sequences , positions ): . ... 31 def to_fasta ( self , file ): . ... 38 for sequence in self . ...

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You are here: Foswiki > System Web > HierarchicalNavigation (23 Aug 2010, ProjectContributor ) E dit A ttach . Navigation block that displays the current topic, its parent and children (if any). ... children . ... STARTSECTION{ all }% div class = foswikiHierarchicalNavigation ul %SEARCH{ parent type= query topic = %BASETOPIC% web = %BASEWEB% nonoise= on format= li class ='foswikiParentTopic' $percentICON{ parent _gray}$percent [[$ web .$ parent ][$ parent ]] /li }% li ...

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... Criteria of branch quality . As it was repeatedly told , phylogenetic trees consist from branches. ... I. e., those positions, which can separate sequences of the branch from other sequences in the alignment. ... Measure of branch separation . ... Here and further: A - branch of the tree, i , j - sequences of alignment . ... That's why number of conserved positions in some branch should be considered in complex with the distribution of conserved positions in the whole alignment. ...

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