r - 使用包 vegdist 在 R 中执行 NMDS 时出错

Question

我正在尝试使用 vegan 包在 R 中对数据集执行 NMDS，该数据集以绘图为列，以物种计数为列。我的数据采用文本文件格式(制表符分隔)，包含大量“0”物种计数。但是，当我尝试创建距离矩阵时，我收到以下错误消息:

bray <- vegdist(data1, method = "bray")                              

Warning messages:1: In vegdist(data1, method = "bray") :you have empty rows: their dissimilarities may be meaningless in method “bray”2: In vegdist(data1, method = "bray") : missing values in results

这会阻止我执行 NMDS:

nmds <- metaMDS(data1, k = 2, 
+           distance = 'bray', autotransform = FALSE)

Error in if (any(dist < -sqrt(.Machine$double.eps))) warning("some dissimilarities are negative -- is this intentional?") :missing value where TRUE/FALSE neededIn addition: Warning messages:1: In distfun(comm, method = distance, ...) :you have empty rows: their dissimilarities may be meaningless in method “bray”2: In distfun(comm, method = distance, ...) : missing values in results

我该如何解决这个问题？

感谢您的回答!

Answer 1

某些列仅包含 0 个计数。删除这些就可以了