The standard operating procedure for the analysis of intact fresh yam tubers and cassava roots is described in this document. The procedures expressed require minimal sample preparation and spectra data collection using near infrared spectrophotometer (NIRS). In breeding programs, breeders often cultivate many genotypes which require rapid screening as part of the characterization process for the genotypes. However, most conventional methods used for the analysis of yam tubers and cassava roots involve considerably number of processes from peeling and chopping to drying in the oven for about 72 hours; these processes are time consuming and do not qualify as high throughput methods of analysis. To this end, a standard near infrared spectrophotometric procedure for the rapid analysis of yam and cassava samples using the intact tubers/roots is described in this SOP.