So now... all is OK (pdf graphs are OK), but, when I'm trying to write as CSV I find this error:
> write.csv(marker_table(mm_lefse_Phylum), file = 'mm_lefse_Phylum.csv', row.names = F)
Error en validObject(.Object):
invalid class “marker_table” object: marker table must have non-zero dimensions
When I visualize the mm_lefse_Phylum it is not empty
> marker_table(mm_lefse_Phylum)
Object of class "marker_table"
feature enrich_group ef_lda pvalue padj
marker1 Proteobacteria WT 4.189638 0.02068083 0.02068083
It seems that now marker_table is not treated as a data frame... I really don't know what to do, as I've tried to convert into a data frame but it seems not to work.
Hi! I was using microbiomeMarker for a long time, but I've recently update the package and I find a problem.
I usually make the analysis in this way...
So now... all is OK (pdf graphs are OK), but, when I'm trying to write as CSV I find this error:
When I visualize the mm_lefse_Phylum it is not empty
It seems that now marker_table is not treated as a data frame... I really don't know what to do, as I've tried to convert into a data frame but it seems not to work.
Thanks!
María