nextgenusfs/funannotate repository overview

funannotate is a pipeline for genome annotation (built specifically for fungi, but theoretically should work with other eukaryotes). It requires only a few simple commands to go from genome assembly all the way to a functional annotated genome (InterPro, PFAM, MEROPS, CAZymes, GO ontology, etc) that is ready for submission to NCBI. Moreover, funannotate incorporates a light-weight comparative genomics package that can get you started looking at differences between funannotated genomes.