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 ...

2025年2月19日 · 重叠群必须使用 VirSorter 进行处理，处理后的病毒重叠群和 VIRSorter_affi-contigs.tab 用作 DRAM-v 的输入。 以下命令将生成病毒重叠群的完整注释和蒸馏： VirSorter2安装可见 geNomad，DeepVirFinder，VirSorter2，VIBRANT，PPR-Meta，viralVerify安装与使用-CSDN博客. --prep-for-dramv 这个参数很重要. 首先参考 https://github.com/WrightonLabCSU/DRAM/issues/363.

2023年1月11日 · DRAM （Distilling and Refining Annotations of Metabolism，提取和精练代谢注释）是一种用于注释宏基因组组装基因组和 VirSorter 确定的病毒重叠群的工具。 DRAM 使用 KEGG 、 UniRef90 、 PFAM 、 dbCAN 、 RefSeq 病毒 、 VOGDB 和 MEROPS 注释 MAG （metagenome assembled genomes， 宏基因组 组装基因组 ） ，也可使用病毒重叠群肽酶数据库以及自定义用户数据库。 DRAM 分两个阶段运行。 首先是将数据库标识符分配给基因的注释 …

2023年12月8日 · The only change is the addition of columns for VIRSorter gene category, auxiliary score and metabolic flags to the annotations.tsv output file. DRAM-v.py distill -i annotation/annotations.tsv -o annotation/distilled DRAM-v strainer. DRAM-v strainer filters down fasta files to only contain genes or scaffolds that meet criteria set by the user.

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes - WrightonLabCSU/DRAM

2020年8月7日 · DRAM-v, the viral mode of DRAM, established rules to identify virally-encoded auxiliary metabolic genes (AMGs), resulting in the metabolic categorization of thousands of putative AMGs from soils and guts. Together DRAM and DRAM-v provide critical metabolic profiling capabilities that decipher mechanisms underpinning microbiome function.

2021年10月11日 · DRAM 和 DRAM-v 一起提供了关键的代谢分析能力，可以破译支持微生物组功能的机制。 DRAM工作方式. DRAM-v先用prodigal进行基因预测，在用数据库做注释. DRAM提供更多的注释信息. DRAM-v分析病毒中的AMG. 安装. 数据库. 注释和数据整理. -o genome_summaries \ --trna_path annotation/trnas.tsv \ --rrna_path annotation/rrnas.tsv. 文章：DRAM for distilling microbial metabolism to automate the curation of microbiome func...

Annotate vMAGs with DRAM and distill resulting annotations to create an interactive auxiliary metabolic gene summary. Use with the VirSorter KBase app. DRAM-v, or DRAM for vMAGs, will annotate vMAGs and predict potential auxiliary metabolic genes, through a set of rules defined in https://academic.oup.com/nar/article/48/16/8883/5884738 .

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2020年9月18日 · We show that DRAM accurately assigned microbial contributions to geochemical cycles and automated the partitioning of gut microbial carbohydrate metabolism at substrate levels. DRAM-v, the viral mode of DRAM, established rules to identify virally-encoded auxiliary metabolic genes (AMGs), resulting in the metabolic categorization of thousands of ...