Term: similarity search method (sim_search_meth)
Tool used to compare ORFs with database, along with version and cutoffs used
URI: MIXS:0000063
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