Description

Tool to summarize and combine all hAMRonization reports into a single file

Input

name:type
description
pattern

reports:file

List of multiple hAMRonization reports in either JSON or TSV format

*.{json,tsv}

format:string

Type of final combined report file to be produced

tsv|json|interactive

Output

name:type
description
pattern

json

hamronization_combined_report.json:file

hAMRonised summary in JSON format

*.json

tsv

hamronization_combined_report.tsv:file

hAMRonised summary in TSV format

*.json

html

hamronization_combined_report.html:file

hAMRonised summary in HTML format

*.html

versions

versions.yml:file

File containing software versions

versions.yml

Tools

hamronization
GNU Lesser General Public v3 (LGPL v3)

Tool to convert and summarize AMR gene detection outputs using the hAMRonization specification

github.com/pha4ge/hAMRonization https://github.com/pha4ge/hAMRonization
included in
funcscan
maintainer
Github user jfy133
get in touch
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