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jenniferlu717 / Bracken

Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.
http://ccb.jhu.edu/software/bracken/index.shtml
GNU General Public License v3.0
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Phylogenetic diversity #182

Open mariemh23 opened 2 years ago

mariemh23 commented 2 years ago

Hello !! Is there any way to generate a phylogenetic tree from Bracken output. I aim to estimate phylogenetic diversity (exp: Faith PD)? Regards

jenniferlu717 commented 2 years ago

You can use the scripts here: https://github.com/jenniferlu717/KrakenTools for diversity calculations. Otherwise, im not fully sure what phylogenetic tree you aim to generate.