Here, we introduce the first release of a deep-learning-based sequence classifier, DeepMicroClass, that classifies metagenomic contigs into five sequence classes: viruses infecting prokaryotic or eukaryotic hosts, eukaryotic or prokaryotic chromosomes, and prokaryotic plasmids. This first released version (v1.0.3) uses the model as described in the [BioRxiv](https://www.biorxiv.org/content/10.1101/2021.10.26.466018v2) paper with a detailed installation guide for GPU or CPU-based servers.