augur
5.4.1
Table of contents
Installation
Using Augur
Working with augur
Augur command documentation
Augur and snakemake
Format of augur output
Environment variables
Tutorials
Examples of Augur in the wild
Development (Python API)
Authors
augur
Docs
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Using Augur
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Using Augur
¶
Working with augur
Augur command documentation
parse
metadata from fasta-headers
Options of the
refine
command
Specify the evolutionary rate
Confidence intervals for divergence times
Specifying the root of the tree
Polytomy resolution
Labeling
clades
Sub-commands:
parse
filter
mask
align
tree
refine
ancestral
translate
reconstruct-sequences
clades
traits
sequence-traits
lbi
distance
titers
frequencies
export
validate
version
Augur and snakemake
Format of augur output
Environment variables
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v: 5.4.1
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