Class: CalledVariantsNanopore
Table containing called_variants_nanopore information
URI: gregor_linkml:CalledVariantsNanopore
classDiagram
class CalledVariantsNanopore
click CalledVariantsNanopore href "../CalledVariantsNanopore"
CalledVariantsNanopore : aligned_nanopore_set_id
CalledVariantsNanopore : analysis_details
CalledVariantsNanopore : called_variants_dna_file
CalledVariantsNanopore : called_variants_nanopore_id
CalledVariantsNanopore : caller_software
CalledVariantsNanopore : md5sum
CalledVariantsNanopore : variant_types
Slots
Name | Cardinality and Range | Description | Inheritance |
---|---|---|---|
called_variants_nanopore_id | 1 String |
unique key for table (anvil requirement) | direct |
aligned_nanopore_set_id | 1 String |
identifier for experiment set | direct |
called_variants_dna_file | 1 String |
name and path of the file with variant calls | direct |
md5sum | 1 String |
md5 checksum for file | direct |
caller_software | 1..* String |
variant calling software used including version number | direct |
variant_types | 1..* String |
types of variants called | direct |
analysis_details | 0..1 String |
brief description of the analysis pipeline used for producing the asc_file; p... | direct |
Identifier and Mapping Information
Schema Source
- from schema: https://w3id.org/madanucd/gregor_linkml
Mappings
Mapping Type | Mapped Value |
---|---|
self | gregor_linkml:CalledVariantsNanopore |
native | gregor_linkml:CalledVariantsNanopore |
LinkML Source
Direct
name: Called_variants_nanopore
description: Table containing called_variants_nanopore information
from_schema: https://w3id.org/madanucd/gregor_linkml
slots:
- called_variants_nanopore_id
- aligned_nanopore_set_id
- called_variants_dna_file
- md5sum
- caller_software
- variant_types
- analysis_details
Induced
name: Called_variants_nanopore
description: Table containing called_variants_nanopore information
from_schema: https://w3id.org/madanucd/gregor_linkml
attributes:
called_variants_nanopore_id:
name: called_variants_nanopore_id
description: unique key for table (anvil requirement)
from_schema: https://w3id.org/madanucd/gregor_linkml
rank: 1000
identifier: true
alias: called_variants_nanopore_id
owner: Called_variants_nanopore
domain_of:
- Called_variants_nanopore
range: string
required: true
aligned_nanopore_set_id:
name: aligned_nanopore_set_id
description: identifier for experiment set
from_schema: https://w3id.org/madanucd/gregor_linkml
rank: 1000
alias: aligned_nanopore_set_id
owner: Called_variants_nanopore
domain_of:
- Aligned_nanopore_set
- Called_variants_nanopore
range: string
required: true
called_variants_dna_file:
name: called_variants_dna_file
description: name and path of the file with variant calls
from_schema: https://w3id.org/madanucd/gregor_linkml
rank: 1000
alias: called_variants_dna_file
owner: Called_variants_nanopore
domain_of:
- Called_variants_dna_short_read
- Called_variants_nanopore
- Called_variants_pac_bio
range: string
required: true
md5sum:
name: md5sum
description: md5 checksum for file
from_schema: https://w3id.org/madanucd/gregor_linkml
rank: 1000
alias: md5sum
owner: Called_variants_nanopore
domain_of:
- Aligned_dna_short_read
- Called_variants_dna_short_read
- Aligned_rna_short_read
- Aligned_nanopore
- Called_variants_nanopore
- Aligned_pac_bio
- Called_variants_pac_bio
- Aligned_atac_short_read
range: string
required: true
caller_software:
name: caller_software
description: variant calling software used including version number
from_schema: https://w3id.org/madanucd/gregor_linkml
rank: 1000
multivalued: true
alias: caller_software
owner: Called_variants_nanopore
domain_of:
- Called_variants_dna_short_read
- Called_variants_nanopore
- Called_variants_pac_bio
range: string
required: true
variant_types:
name: variant_types
description: types of variants called
from_schema: https://w3id.org/madanucd/gregor_linkml
rank: 1000
multivalued: true
alias: variant_types
owner: Called_variants_nanopore
domain_of:
- Called_variants_dna_short_read
- Called_variants_nanopore
- Called_variants_pac_bio
range: string
required: true
analysis_details:
name: analysis_details
description: brief description of the analysis pipeline used for producing the
asc_file; perhaps a link to something like a WDL file or github repository
from_schema: https://w3id.org/madanucd/gregor_linkml
rank: 1000
alias: analysis_details
owner: Called_variants_nanopore
domain_of:
- Aligned_dna_short_read
- Called_variants_dna_short_read
- Aligned_nanopore
- Called_variants_nanopore
- Aligned_pac_bio
- Called_variants_pac_bio
- Called_peaks_atac_short_read
- Allele_specific_atac_short_read
range: string