Term: contamination score (contam_score)

The contamination score is based on the fraction of single-copy genes that are observed more than once in a query genome. The following scores are acceptable for; High Quality Draft: < 5%, Medium Quality Draft: < 10%, Low Quality Draft: < 10%. Contamination must be below 5% for a SAG or MAG to be deposited into any of the public databases

URI: MIXS:0000072

Applicable Checklists and Extensions

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

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

Properties

• Range: Float
• Cardinality: 0..1

Examples

Value
0.01

LinkML Source

name: contam_score
description: 'The contamination score is based on the fraction of single-copy genes
  that are observed more than once in a query genome. The following scores are acceptable
  for; High Quality Draft: < 5%, Medium Quality Draft: < 10%, Low Quality Draft: <
  10%. Contamination must be below 5% for a SAG or MAG to be deposited into any of
  the public databases'
title: contamination score
examples:
- value: '0.01'
in_subset:
- sequencing
from_schema: https://w3id.org/mixs
keywords:
- score
slot_uri: MIXS:0000072
alias: contam_score
domain_of:
- Mimag
- Misag
range: float