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courses:bin:tutorials:tutorial5 [2019/03/13 12:40]
rysavpe1 [Problem 4 - Is Giant panda a bear or a raccoon?]
courses:bin:tutorials:tutorial5 [2019/03/14 16:36] (current)
rysavpe1 [Problem 4 - Is Giant panda a bear or a raccoon?]
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 {{ :​courses:​bin:​tutorials:​phylogeny_msa_panda.png?​nolink&​600 |}} {{ :​courses:​bin:​tutorials:​phylogeny_msa_panda.png?​nolink&​600 |}}
  
-The phylogenetic tree is based on multiple sequence alignment. On the contrary, multiple sequence alignment can be calculated from a phylogenetic tree (recall the CLUSTALW algorithm). Use the tree to calculate a new multiple sequence alignment, and use that one to build a new phylogenetic tree. [[http://​evolution.genetics.washington.edu/​phylip/​general.html|Phylip]] package contains all tools needed.+The phylogenetic tree is based on multiple sequence alignment. On the contrary, multiple sequence alignment can be calculated from a phylogenetic tree (recall the CLUSTALW algorithm). Use the tree to calculate a new multiple sequence alignment, and use that one to build a new phylogenetic tree. [[http://​evolution.genetics.washington.edu/​phylip/​general.html|Phylip]] package contains all the tools needed
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 +An alternative online tool for phylogeny may be found ENA website. Start with multiple sequence alignment on https://​www.ebi.ac.uk/​Tools/​msa/​clustalo/,​ and finish with phylogeny tool on https://​www.ebi.ac.uk/​Tools/​phylogeny/​simple_phylogeny/​.
  
 [ Story of panda'​s taxonomy is mentioned in [[https://​mitpress.mit.edu/​books/​introduction-bioinformatics-algorithms|this book]]. ] [ Story of panda'​s taxonomy is mentioned in [[https://​mitpress.mit.edu/​books/​introduction-bioinformatics-algorithms|this book]]. ]
courses/bin/tutorials/tutorial5.txt · Last modified: 2019/03/14 16:36 by rysavpe1