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gjospin / PhyloSift

Phylogenetic and taxonomic analysis for genomes and metagenomes
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Easy way to calculate KR distances among samples with guppy #17

Closed koadman closed 12 years ago

koadman commented 12 years ago

guppy can calculate the Kantorovich Rubenstein distance among a pair of pplacer placement files. These distances are useful for assessing how similar two microbial communities are to each other. amphora2 should have a way to calculate these distances among a group of samples using the protein marker families.

koadman commented 12 years ago

trouble with guppy complaining about missing pp values or when --pp is not used, missing tree "bark". need to inquire with matsen.

koadman commented 12 years ago

The FHCRC team fixed guppy, merged into master with 20e521dc53e999a04c92d67fe427b842d8b54305