I have downloaded the taxonomy table emp_cr_silva_16S_123.qc_filtered.biom from the site ftp://ftp.microbio.me/emp/release1. However, when I try and read this into R I get the error:
Error in read_biom(biom_file = BIOMfilename) :
Both attempts to read input file:
~/Downloads/emp_cr_silva_16S_123.qc_filtered.biom
either as JSON (BIOM-v1) or HDF5 (BIOM-v2).
Check file path, file name, file itself, then try again.
The filename is correct so not sure where to go. I am trying to calculate species/ASV diversity of a few different genera, and would like to use the un-rarefied QC controlled samples.
antgonza
commented
1 year ago
Hi
I have downloaded the taxonomy table emp_cr_silva_16S_123.qc_filtered.biom from the site ftp://ftp.microbio.me/emp/release1. However, when I try and read this into R I get the error:
The filename is correct so not sure where to go. I am trying to calculate species/ASV diversity of a few different genera, and would like to use the un-rarefied QC controlled samples.