taxonomy_recovery
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Quick taxonomy recovery using the Accession numbers from either a Blast or Plast output:
use acc2tax program available in the environmental path.
here is an example of how to run it for protein IDs (-p):
acc2tax -i /db1/extra-data-sets/Acc2tax/acc2taxIN_example -p -d /db1/extra-data-sets/Acc2tax/Acc2Tax_071119 -o taxonomy.out
don't forget to make sure that your input file contains only the accession numbers without their version, see the example file given above.
-_- E.g., MBI4782295.1 shall be MBI4782295, otherwise the bugs will occur:
Couldn't find: [MBI4782295.1]
| _ |
|---|
> sed 's/\(.*\)\..*/\1/g' file >out_file
acc2tax database:
/scratch3/rogerlab_databases/other_dbs/Acc2Tax_Feb122021 (Up to date Feb 23, 2021)
taxonomy_recovery.1632173304.txt.gz · Last modified: by 134.190.232.139