Supported Applications

plmc

Description

infers undirected graphical models to describe coevolution and covariation in families of biological sequences. With a multiple sequence alignment as an input, plmc can quantify inferred coupling strengths between all pairs of positions (couplingsfile output) or infer a generative model of the sequences for predicting the effects of mutations or designing new sequences (paramfile output).
Installation
Use the following command to install this title with the CLI client: $ sbgrid-cli install plmc
Primary Citation*

T. A. Hopf, J. B. Ingraham, F. J. Poelwijk, C. P. I. Schärfe, M. Springer, C. Sander, and D. S. Marks. 2017. Mutation effects predicted from sequence co-variation. Nature Biotechnology. 35: 128-135.
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