catherineel

Results 9 comments of catherineel

How to filter non-significant odd named taxa, and only keep the significant odd named taxa?

Statistical signifiance after correcting for multiple comparisons. This is what I did: create a new column called wilcox_p_value_p.adjusted to correct for multiple comparison ``` obj$data$diff_table$wilcox_p_value_p.adjusted % metacoder::filter_taxa(grepl(taxon_names, pattern = "^[a-zA-Z]+$"),...

How to filter non-significant odd named taxa, and only keep the significant odd named taxa?

Thanks for that, but unfortunately I get this error when I replace ` metacoder::filter_taxa(grepl(taxon_names, pattern = "^[a-zA-Z]+$"), reassign_obs = FALSE) %>% ` with `metacoder::filter_taxa(! (wilcox_p_value_p.adjusted > 0.05 & ! grepl(taxon_names,...

How to filter non-significant odd named taxa, and only keep the significant odd named taxa?

Sorry dumb question, but how do I send an example data? My original data file is huge as it's a qza file from QIIME2 analysis and I'm not sure what...

How to filter non-significant odd named taxa, and only keep the significant odd named taxa?

Thanks, I just emailed it to you! I'm not sure if I did it correctly

Metabolic pathway packages/script recommendations

That's okay, thank you so much! Looking forward to more of your future workshops! :)

Metabolic pathway packages/script recommendations

Oh wonderful, thank you @ChiLiubio!!

`compare_groups`: allow comparisions with more than one grouping variable

Is there a way to list the combinations of which specific groups we want to compare instead of comparing everything against each other, or just one pair at a time?...

`compare_groups`: allow comparisions with more than one grouping variable

Not exactly, is there a way to list specific combinations in one line? For example, I used this code to compare **control vs disease** and then I repeated the same...

`compare_groups`: allow comparisions with more than one grouping variable

Yes that does, thanks a lot!