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WrightonLabCSU / DRAM

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes
GNU General Public License v3.0
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A question about viral hallmark gene and viral-like gene #177

Open fanlu-f opened 2 years ago

fanlu-f commented 2 years ago

Hi， I have some confusion when analyzing AMG, so I hope I can get some help.

1.In the published papter of DRAM, the figure 6(a) display the definition of auxiliary score. How can I get each gene classification information about AMG or viral hallmark gene or viral-like gene? I can not find that in Virorter2 and DRAM output file.

2.According to the figure 6(a) we can see DRAM has done identification context of each auxiliary gene. But some papers also proposal to mamul identification context of each auxiliary genes have filtered by DRAM. Because I am not very professional in this field. So can I use the output file of distilled process directly?

Thank you very much for your help.

rmFlynn commented 2 years ago

Stay tuned! We will get you an official answer soon!

Bowencqu commented 6 months ago

I have the same confusion. In my data, there are more than 20,000 non-redundant vOTUs. amg_summery.tsv obtained after DRAM-v distill step contains more than 20,000 putative AMGs, are these numbers abnormally high? Looking forward to your reply!