Shuangbin Xu

Thank you, I got it.

The github version supports it ``` library(ggstar) library(ggplot2) dat

Please refer to the answer https://github.com/xiangpin/ggstar/issues/2#issuecomment-922227314

This is because the `geom_hilight` of ggtree( released version) does not support the function for `data` parameter. This feature is supported by ggtree >= 3.1.3. But, you can use `subset=nodeClass...

+ Please check column names of associated data of the `treedata` have the `RareAbundanceBySample`. ``` > mouse.time.mpse %>% mp_rrarefy() %>% mp_cal_abundance %>% mp_diff_analysis( .abundance = RelRareAbundanceBySample, .group = time, first.test.alpha...

The `MPSE` object created from `MetaPhlAn3` profile only contained the relative abundance of species (the count is also accepted if the relative abundance multiply by the depth of samples). Then...

This is because the default of `LEfSe` does not perform the `fdr` correction for the first test. But the default of `mp_diff_analysis` set the method of filter pvalue of the...

+ Can I use median as fc.method ? Yes, you can specify `fc.method` to `compare_median` to use `median`, or `compare_mean` to use `mean`. + If we have many samples, can...

The LDA score was calculated using multiple iteration subset datasets (extract from the original dataset (default relative abundance table of all taxonomy)), which is random. To make the analysis reproducible,...

LEfSe python package