OrphanCap: Massive-scale evolutionary study of germplasm databases using the orphan crop Amaranthus as a case study

OrphanCap is a wet-lab and data analysis workflow to create and analyze SNP data from thousands of samples of orphan crops or other species. OrphanCap will combine RADcap library preparation method (Hoffberg et al., 2016) with ipyrad SNP calling software (Eaton, 2014, http://ipyrad.readthedocs.io/) into a seamless end-to-end workflow.

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