## phyloseq-class experiment-level object
## otu_table() OTU Table: [ 754 taxa and 70 samples ]
## sample_data() Sample Data: [ 70 samples by 69 sample variables ]
## tax_table() Taxonomy Table: [ 754 taxa by 8 taxonomic ranks ]
## phyloseq-class experiment-level object
## otu_table() OTU Table: [ 754 taxa and 70 samples ]
## sample_data() Sample Data: [ 70 samples by 69 sample variables ]
## tax_table() Taxonomy Table: [ 754 taxa by 8 taxonomic ranks ]
## phy_tree() Phylogenetic Tree: [ 754 tips and 752 internal nodes ]
It’s time to make a tree. Check out a helpful stack exchange page: http://unix.stackexchange.com/questions/253499/extracting-subset-from-fasta-file
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## Wilcoxon rank sum test
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## data: mpd.obs.z by fraction
## W = 55, p-value = 0.3474
## alternative hypothesis: true location shift is not equal to 0
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## Wilcoxon rank sum test
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## data: mpd.obs.z by fraction
## W = 143, p-value = 1.479e-06
## alternative hypothesis: true location shift is not equal to 0
## # A tibble: 2 × 3
## fraction `mean(mpd.obs.z)` `median(mpd.obs.z)`
## <fctr> <dbl> <dbl>
## 1 WholePart 0.7346088 0.8119896
## 2 WholeFree -1.8572351 -2.0238057
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## Wilcoxon rank sum test
##
## data: mntd.obs.z by fraction
## W = 93, p-value = 0.2415
## alternative hypothesis: true location shift is not equal to 0
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## Wilcoxon rank sum test
##
## data: mntd.obs.z by fraction
## W = 126, p-value = 0.001115
## alternative hypothesis: true location shift is not equal to 0
## Error in eval(expr, envir, enclos): object 'mpd.obs.z' not found