Hi there,
Thank you for the useful tool. I am not a beginner of DRAM, in terms of both the tool itself and its original paper. However, I didn't figure out how DRAM selected its preferred id when the rank of best hits were of D class yet.
As mentioned, D rank may include the hits from three reference databases.
The next rank represents proteins that only had Pfam, dbCAN or MEROPS matches (D rank), but hits to KEGG or UniRef90 were <60 bit score.
But if I didn't misunderstand the case, I noticed a gff file from DRAM.py annotate would documentate only one id for Dbxref. Is it actually right? So, which of these three reference databases would be preferred, if all of them had a hit?
I recently test DRAM.py annotate_genes for predicted faa files, and I would like to manually decorate gff files for the genes with the resulting annotations.tsv. Need for your advices to assign IDs of D rank! Thanks in advance.
Hi there,
Thank you for the useful tool. I am not a beginner of DRAM, in terms of both the tool itself and its original paper. However, I didn't figure out how DRAM selected its preferred id when the rank of best hits were of D class yet.
As mentioned, D rank may include the hits from three reference databases.
But if I didn't misunderstand the case, I noticed a gff file from
DRAM.py annotatewould documentate only one id for Dbxref. Is it actually right? So, which of these three reference databases would be preferred, if all of them had a hit?I recently test
DRAM.py annotate_genesfor predicted faa files, and I would like to manually decorate gff files for the genes with the resultingannotations.tsv. Need for your advices to assign IDs of D rank! Thanks in advance.