hello
I've been asked (by my advisor) to analyze ERIC gels through a cladogram. Basically each strain we're analyzing has a band pattern and we have to group them by similarity. Can anybody help me? I've tried to look up a software but I have only found instructions to make cladograms by hand, which would take me too long.
Thanks !
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Software to construct a cladogram from a gel
Started by Reisboy, Oct 17 2011 12:48 PM
cladogram software ERIC
2 replies to this topic
#2
hobglobin
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Posted 18 October 2011 - 08:46 AM
No idea what a ERIC gel is. But band patterns you can sum up for example as 0/1 sets (band there =1 band absent = 0) and then calculate distances/similarities between them with an appropriate program (e.g. Phylip/Arlequin/PAUP and others). Out of this similarity matrix make a tree using a fitting tree-estimating method (UPGMA/NJ/Parsimony...). Software is here PAUP, Phylip, Treeview and many others...
Hereis a compendium of software.
Hereis a compendium of software.
One must presume that long and short arguments contribute to the same end. - Epicurus
...except casandra's that belong to the funniest, most interesting and imaginative (or over-imaginative?) ones, I suppose.
#3
Reisboy
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Posted 18 October 2011 - 08:59 AM
Thanks! I'll try that!
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