MATRIX pipeline

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MATRIX is script to build pathogen recognition protein profiles.

The phylogenetic related pathogen recognition proteins groups were used as a base for the creation of Hidden Markov Models (HMM) using the HMMer v3 package.

The HMM profiles can be next used to screen plant proteomes to identify putative pathogen recognition proteins.

The result of this screen is a numeric matrix that represents the similarity score of every single protein with each HMM profile.

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