genomeproperties

Description

Genome properties is an annotation system whereby functional attributes can be assigned to a genome, based on the presence of a defined set of protein signatures within that genome.

Pipelines

This module is used by the following pipelines:

• assembly-analysis-pipeline

Installation

ebi-metagenomics/genomeproperties

nf-core modules -g https://www.github.com/ebi-metagenomics/nf-modules install genomeproperties

Tools

genomeproperties

Genome properties use protein signatures as evidence to determine the presence of each step within a property.

• genome-properties.readthedocs.io/en/latest/index.html
• 10.1093/nar/gky1013
• github.com/ebi-pf-team/genome-properties
• GPL-3.0"

Input

Name	Type	Description	Pattern
meta	map	Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]	-
ips	file	TSV file from InterProScan	*.tsv

Output

Name	Type	Description	Pattern
meta	map	Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]	-
summary	file	Summary file of genome properties	*.txt
json	file	JSON results file of genome properties	*.txt
tsv	file	TSV results file of genome properties	*.txt
versions	file	File containing software versions	versions.yml

People

Authors

@chrisata

Maintainers

@chrisata