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plmc

  • Description

    a tool that 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).

  • Usage

    To list all executables provided by plmc, run: $ sbgrid-list plmc Copy to clipboard

  • Installation

    Use the following command to install this title with the CLI client: $ sbgrid-cli install plmc Copy to clipboard Available operating systems: Linux 64, OS X INTEL

  • 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.


    • *Full citation information available through

  • Keywords

    Statistical Analysis

  • Default Versions

    Linux 64:  20171002 (1.7 MB)
    OS X INTEL:  20171002 (1.7 MB)

  • Developers

    Debora S Marks, John Ingraham

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