Data Frame Structure for vegdist()
Rich Shepard p??e v ?t 07. 11. 2013 v 12:38 -0800:
I have data frames on which I want to calculate the default Bray-Curtis
dissimilarity matrix using vegdist() in the vegan package. The data are
proportions of individuals in each of 5 categories with the first column as
the collection date. One such data frame is:
sampdate filter gather graze predate shred
1 2004-06-17 0.0093 0.8881 0.0295 0.0685 0.0046
2 2005-07-18 0.0149 0.8402 0.0951 0.0467 0.0030
3 2006-06-29 0.0217 0.7538 0.1185 0.1006 0.0055
4 2011-07-14 0.0241 0.8408 0.0645 0.0625 0.0081
5 2012-07-10 0.0114 0.4877 0.0256 0.2936 0.1818
Am I correct in assuming that I need to remove the sampdate column?
Rich
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Dear Rich, I guess you are asking because you wish to retain your sampling dates as labels. (If not, throw them away. If they say something you wish to base your distances on (e.g. some important phenological date, peak of some organism or characteristic), then retain them.) If you just need labels: newdata <- olddata[,2:length(olddata)] rownames(newdata) <- olddata[,1] HTH, Martin Weiser