Difference between revisions of "Dram"
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Latest revision as of 14:11, 21 October 2022
Description
DRAM (Distilled and Refined Annotation of Metabolism) is a tool for annotating metagenomic assembled genomes and VirSorter identified viral contigs. DRAM annotates MAGs and viral contigs using KEGG (if provided by the user), UniRef90, PFAM, dbCAN, RefSeq viral, VOGDB and the MEROPS peptidase database as well as custom user databases. DRAM is run in two stages. First an annotation step to assign database identifiers to gene, and then a distill step to curate these annotations into useful functional categories. Additionally, viral contigs are further analyzed during to identify potential AMGs. This is done via assigning an auxiliary score and flags representing the confidence that a gene is both metabolic and viral.
Environment Modules
Run module spider dram to find out what environment modules are available for this application.
System Variables
- HPC_DRAM_DIR - installation directory
- HPC_DRAM_REF - reference database directory
Citation
If you publish research that uses dram you have to cite it as follows:
Nucleic Acids Research, Volume 48, Issue 16, 18 September 2020, Pages 8883–8900, https://doi.org/10.1093/nar/gkaa621