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This repository contains code pertaining to the paper titled "Evolution shapes metabolic function and niche-specific antimicrobial targets in pathobionts"

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PATHGENN

PATHobiont GENRE eNsemble

This repository contains the database of 914 GENREs of all known human bacterial pathobionts along with their corresponding MEMOTE benchmarking scores and associated metadata downloaded from BV-BRC.

/GENREs

This folder contains all genome scale metabolic network reconstructions. The file names in the GENREs folder are the BV-BRC genome ids.

/MEMOTE

This folder contains all .html MEMOTE reports for each of the 914 GENREs. html files may not be easily readable, summary of results is available in MemoteScores.xlsx

BVBRC_Strains_Metadata.xlsx

Excel file containing names, BV-BRC ids, and metadata associated with each of the genomes used to create the GENREs of PATHGENN

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This repository contains code pertaining to the paper titled "Evolution shapes metabolic function and niche-specific antimicrobial targets in pathobionts"

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