Differential richness inference for 16S rRNA marker gene surveys.
M Senthil KumarEric V SludChristine HehnlyLijun ZhangJames BroachRafael A IrizarrySteven J SchiffJoseph N PaulsonPublished in: Genome biology (2022)
False species discoveries bias richness estimation and confound differential richness inference. In the case of 16S microbiome surveys, supporting evidence indicate that most sub-genus taxa are spurious. Based on this finding, a flexible method is proposed and is shown to overcome the confounding problem noted with current approaches for differential richness inference. Package availability: https://github.com/mskb01/prokounter.