evol1
Sequence evolution and dynamics analysis
Overview
usage: evol [-h] [-c] [-v] [-e]
-
{search,fetch,filter,refine,merge,occupancy,conserv,coevol,rankorder} ...
Evol: Sequence Evolution and Dynamics Analysis
options:
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-h, --help -
show this help message and exit
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-c, --cite -
print citation info and exit
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-v, --version -
print ProDy version and exit
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-e, --examples -
show usage examples and exit
subcommands:
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{search,fetch,filter,refine,merge,occupancy,conserv,coevol,rankorder} |
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search
|
search Pfam with given query |
fetch
|
fetch MSA files from Pfam |
filter
|
filter an MSA using sequence labels |
refine
|
refine an MSA by removing gapped rows/colums |
merge
|
merge multiple MSAs based on common labels |
occupancy
|
calculate occupancy of rows and columns in MSA |
conserv
|
analyze conservation using Shannon entropy |
coevol
|
analyze co-evolution using mutual information |
rankorder
|
identify highly coevolving pairs of residues |
See 'evol <command> -h' for more information on a specific command.