Here the acronym ESKAPEE comprises 7 pathogens namely Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa, Enterobacter species, and E. Coli. This repository contains the processed RefSeq data of ESKAPEE pathogens and non-ESKAPEE categories such as Human DNA, Fungi, and non-ESKAPEE bacteria. This is part of the dataset that we used to train AI models for this work by my research group: "AI-based Dynamic web server for real-time classification of raw genome sequences of ESKAPEE pathogens". We deployed the AI model linked with this work as a dynamic web server on http://115.241.23.53:8000. It is publicly available from the link: http://115.241.23.53:8000 so that researchers may upload their data (in FQ/FASTQ.gz format) to check ESKAPEE labels.