Anbu Poosakkannu

paired end seq are not identical

1

Hi, I am getting error saying that paired end sequences are not identical. Could you give me an idea to overcome this problem?

plot alpha error

12

Hi, i try to plot the alpha diversity by_group and found problem with significant code. Please check the following code. #calculate and plot the alpha diversity t_country

problem in getting desired levels of a factor in facet_wrap of rarefaction curve

2

Hi, I have problem in getting desired levels of a factor in facet_wrap of rarefaction curve even after i changed the levels of factor in dataset itself, the code is...

venn diagram levels of the factor

3

Hi, I tried make the venn plot according to a level of order. But it is not changing. I used following code, # merge samples as one community for each...

heatmap x axis label

1

Hi, I used ASV level abundance heatmap plot. I am getting species name along with ASV lable (below pic). i want to keep only ASV number not species names. Could...

saving permanova and beta dispersion results

1

Hi, I would like to save permanova and beta dispersion results in csv format. I have trouble saving especiallu beta dispersion results. Error in as.data.frame.default(tmp_beta$res_betadisper) : cannot coerce class '"permutest.betadisper"'...

Compute prevalence and abundance summary of each species/OTU for different variables

5

Hi, i wonder could it be possible to get prevalence and abundance summary of all the otus in a object somthing like mentioned in https://rdrr.io/github/vmikk/metagMisc/src/R/prevalence.R, but prevalence and abundance for...

Core microbiome

5

Hi, I wonder any possibility identify core microbiome using microeco object? Like filtering based on the prevalence and abundance? Pls let me know!

subsetting taxa

15

Hi, i wonder could it be possible to subset a object using specific taxa? Please let me know! thanks in advance!