/
params.json
48 lines (48 loc) · 1.84 KB
/
params.json
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{
"$schema": "http://json-schema.org/draft-07/schema",
"$id": "https://raw.githubusercontent.com/bactopia/bactopia/master/modules/nf-core/fastani/params.json",
"title": "fastANI Module",
"description": "A module for alignment-free computation Average Nucleotide Identity (ANI)",
"type": "object",
"definitions": {
"fastani_parameters": {
"title": "fastANI Parameters",
"type": "object",
"description": "",
"default": "",
"fa_icon": "fas fa-exclamation-circle",
"properties": {
"kmer": {
"type": "integer",
"default": 16,
"description": "kmer size (<= 16) for ANI calculation ",
"fa_icon": "fas fa-expand-arrows-alt"
},
"min_fraction": {
"type": "number",
"default": 0.2,
"description": "Minimum fraction of genome that must be shared for trusting ANI.",
"help": "If reference and query genome size differ, smaller one among the two is considered.",
"fa_icon": "fas fa-expand-arrows-alt"
},
"frag_len": {
"type": "integer",
"default": 3000,
"description": "fragment length",
"fa_icon": "fas fa-expand-arrows-alt"
},
"skip_pairwise": {
"type": "boolean",
"default": false,
"description": "Only use RefSeq or local assemblies for ANI calculations",
"fa_icon": "fas fa-expand-arrows-alt"
}
}
}
},
"allOf": [
{
"$ref": "#/definitions/fastani_parameters"
}
]
}