Hello, the version of HUMAnN is 2.8.2. The default parameter of --identity-threshold
depends on the search mode, Uniref 50 or Uniref 90.
I want to use the intermediate files where --search-mode
is set as Uniref 90 and --identity-threshold
is 90.0 to re-analyse the data at the identity threshold of 50.0.
humann2 -r -o humann2/ --nucleotide-database database/index --protein-database protein/ --threads 10 -i clean.fastq --identity-threshold 50.0
But the log file shows the identity threshold is still 90.0.
Therefore, is it feasible to set the --identity-threshold
as 50.0 under Uniref 90
search mode.
Thanks in advance!
Mort