Term: contamination screening parameters (contam_screen_param)

Specific parameters used in the decontamination sofware, such as reference database, coverage, and kmers. Combinations of these parameters may also be used, i.e. kmer and coverage, or reference database and kmer

URI: MIXS:0000073

Applicable Checklists and Extensions

NOTE: does not include Combinations (of checklists and extensions) that use contam_screen_param.

Name	Description	Checklist/Extension
Misag	Minimum Information About a Single Amplified Genome	Checklist
Mimag	Minimum Information About a Metagenome-Assembled Genome	Checklist

Properties

• Range: String
• Cardinality: 0..1

Examples

Value
kmer

Annotations

• Expected_value: enumeration;value or name

LinkML Source

name: contam_screen_param
annotations:
  Expected_value:
    tag: Expected_value
    value: enumeration;value or name
description: Specific parameters used in the decontamination sofware, such as reference
  database, coverage, and kmers. Combinations of these parameters may also be used,
  i.e. kmer and coverage, or reference database and kmer
title: contamination screening parameters
examples:
- value: kmer
in_subset:
- sequencing
from_schema: https://w3id.org/mixs
keywords:
- parameter
string_serialization: '[ref db|kmer|coverage|combination];{text|integer}'
slot_uri: MIXS:0000073
alias: contam_screen_param
domain_of:
- Mimag
- Misag
range: string