Hi!

I am exploring the option of using groot-db as it combines 3 well used AMR databases.
I believe that this is a very good idea but i am facing some issues that I believe is good to address.

Here is a typical output that I have from my results:

C_RESFINDER__erm(F)3_M17808 211 801 762M39D
groot-db_CARD__gb|GQ342996|+|797-1793|ARO:3003097|CfxA6 346 997 38D948M11D
groot-db_ARGANNOT_(Bla)cfxA6:GQ342996:798-1793:966 346 996 38D948M10D
groot-db_RESFINDER__tet(Q)4_Z21523 194 1926 12D1850M64D
groot-db_ARGANNOT_(Tet)TetQ:Z21523:362-2287:1926 197 1974 1910M64D

It is clear that entries 2-3 and 4-5 are duplicates. Same gene (maybe different allele?) presented 2 times in the report. This makes parsing and summarizing the results quite tricky to handle.
Can you see any way to tackle that?

Also the format of each entry is dependent from the database of origin. So the first column is different for CARD, ARGANNOT and RESFINDER. This is also a bit confusing and difficult to handle.
Do you think that you could homogenize that? if not maybe give a description of the format for each different DB in the report files?

Please let me know what you think.
Thank you in advance
Leonardos