A new report published by FPInnovations, In-Situ Identification of Wood Inhabiting Microorganisms, compares three methods for identifying wood-inhabiting microorganisms. To improve the accessibility of genomics for the identification of wood inhabiting microorganisms, we compared three different methods for metabarcoding on environmental DNA (eDNA): cloning with first-generation Sanger sequencing, amplicon metabarcoding with second-generation Illumina sequencing, and, lastly, amplicon metabarcoding with third-generation, long read sequencing with the portable MinION. We looked at costs for each method, speed, and difficulty.