Term: similarity search method (sim_search_meth)

Tool used to compare ORFs with database, along with version and cutoffs used

Applicable Checklists and Extensions

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

Name	Description	Checklist/Extension
MigsVi	Minimal Information about a Genome Sequence: virus	Checklist
MigsOrg	Minimal Information about a Genome Sequence: organelle	Checklist
Mimag	Minimum Information About a Metagenome-Assembled Genome	Checklist
Miuvig	Minimum Information About an Uncultivated Virus Genome	Checklist
MigsPl	Minimal Information about a Genome Sequence: plasmid	Checklist
Mims	Metagenome or Environmental	Checklist
Misag	Minimum Information About a Single Amplified Genome	Checklist
MigsEu	Minimal Information about a Genome Sequence: eukaryote	Checklist
MigsBa	Minimal Information about a Genome Sequence: cultured bacteria/archaea	Checklist

Properties

Range: String
Cardinality: 0..1
Structured pattern: ^{software};{version};{parameters}$
Regex pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$

Examples

Value
HMMER3;3.1b2;hmmsearch, cutoff of 50 on score

LinkML Source

name: sim_search_meth
description: Tool used to compare ORFs with database, along with version and cutoffs
  used
title: similarity search method
examples:
- value: HMMER3;3.1b2;hmmsearch, cutoff of 50 on score
in_subset:
- sequencing
from_schema: https://w3id.org/mixs
keywords:
- method
slot_uri: MIXS:0000063
alias: sim_search_meth
domain_of:
- MigsBa
- MigsEu
- MigsOrg
- MigsPl
- MigsVi
- Mimag
- Mims
- Misag
- Miuvig
range: string
pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
structured_pattern:
  syntax: ^{software};{version};{parameters}$
  interpolated: true
  partial_match: true