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I am using eggnog to annotate metagenome assemblies that contain all domains of life. I want to exclude Eukaryotes from my analyses. It seems that there are multiple ways to do this using --tax_scope and --target_taxa options. Other open Issues seem to suggest using these flags can alter the results. I would prefer to annotate the dataset without one of these flags and then filter the dataset using the best_tax_level column in the annotation file. Is there a table of the taxonomic level names used in eggnog that can be made available so that one could write a script to filter large sets of results based on the taxonomic names in that column? Is there another built-in way for me to exclude sequences with Eukaryotic annotations in the best_tax_level column?
Thanks
The text was updated successfully, but these errors were encountered:
Hi,
I am using eggnog to annotate metagenome assemblies that contain all domains of life. I want to exclude Eukaryotes from my analyses. It seems that there are multiple ways to do this using --tax_scope and --target_taxa options. Other open Issues seem to suggest using these flags can alter the results. I would prefer to annotate the dataset without one of these flags and then filter the dataset using the best_tax_level column in the annotation file. Is there a table of the taxonomic level names used in eggnog that can be made available so that one could write a script to filter large sets of results based on the taxonomic names in that column? Is there another built-in way for me to exclude sequences with Eukaryotic annotations in the best_tax_level column?
Thanks
The text was updated successfully, but these errors were encountered: