Term: assembly software (assembly_software)
Tool(s) used for assembly, including version number and parameters
URI: MIXS:0000058
Applicable Checklists and Extensions
NOTE: does not include Combinations (of checklists and extensions) that use assembly_software.
| Name | Description | Checklist/Extension |
|---|---|---|
| Mimag | Minimum Information About a Metagenome-Assembled Genome | Checklist |
| MigsEu | Minimal Information about a Genome Sequence: eukaryote | Checklist |
| MigsVi | Minimal Information about a Genome Sequence: virus | Checklist |
| Mims | Metagenome or Environmental | Checklist |
| MigsBa | Minimal Information about a Genome Sequence: cultured bacteria/archaea | Checklist |
| MimarksS | Minimal Information about a Marker Specimen: survey | Checklist |
| Misag | Minimum Information About a Single Amplified Genome | Checklist |
| Miuvig | Minimum Information About an Uncultivated Virus Genome | Checklist |
| Agriculture | A collection of terms appropriate when sequencing samples obtained in an agri... | Extension |
| MigsPl | Minimal Information about a Genome Sequence: plasmid | Checklist |
| MigsOrg | Minimal Information about a Genome Sequence: organelle | 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 |
|---|
| metaSPAdes;3.11.0;kmer set 21,33,55,77,99,121, default parameters otherwise |
LinkML Source
name: assembly_software
description: Tool(s) used for assembly, including version number and parameters
title: assembly software
examples:
- value: metaSPAdes;3.11.0;kmer set 21,33,55,77,99,121, default parameters otherwise
in_subset:
- sequencing
from_schema: https://w3id.org/mixs
keywords:
- software
slot_uri: MIXS:0000058
alias: assembly_software
domain_of:
- MigsBa
- MigsEu
- MigsOrg
- MigsPl
- MigsVi
- Mimag
- MimarksS
- Mims
- Misag
- Miuvig
- Agriculture
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