Skip to content
Merged
Show file tree
Hide file tree
Changes from all commits
Commits
File filter

Filter by extension

Filter by extension

Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
1 change: 1 addition & 0 deletions AD.model.csv
Original file line number Diff line number Diff line change
Expand Up @@ -1007,6 +1007,7 @@ samplingAgeUnits,Age at sampling units.,"days, gestational weeks, months, PCW, w
scanID,"The ID of a sample, specimen, or individual in a scan or imaging file.",,,,False,ManifestColumn,,sage.annotations-experimentalData.scanID-0.0.2,,string,imaging
SentrixID,BeadChip ID in Illumina array-based assay,,,,False,ManifestColumn,,sage.annotations-experimentalData.SentrixID-0.0.2,,string,experimentalData
SentrixRowColumn,Position of sample on BeadChip in Illumina array-based assay,,,,False,ManifestColumn,,sage.annotations-experimentalData.SentrixRowColumn-0.0.2,,string,experimentalData
sequenceAnalysis,The determination of the sequence of component residues in a macromolecule e.g. amino acids in a protein or nucleotide bases in DNA/RNA or the computational analysis performed to determine the similarities between nonidentical proteins or molecules of DNA or RNA.,"unaligned sequence read, aligned sequence read, other",,,False,ManifestColumn,,sage.annotations-qc.sequenceAnalysis-0.0.2,,string,spatial
sequencingBatch,Batch library was sequenced in,,,,False,ManifestColumn,,sage.annotations-batch.sequencingBatch-0.0.2,,string,batch
sex,"Sex assigned at birth, or by sequencing","male, female, missing or unknown",,,True,ManifestColumn,,sage.annotations-experimentalData.sex-0.0.2,,string,demographics
sexChromosome,"Sex identified by SNP genotype (e.g XX, XY)",,,,False,ManifestColumn,,sage.annotations-clinical.sexChromosome-0.0.2,,string,demographics
Expand Down
82 changes: 65 additions & 17 deletions AD.model.jsonld
Original file line number Diff line number Diff line change
Expand Up @@ -14782,6 +14782,9 @@
{
"@id": "bts:MayoDx"
},
{
"@id": "bts:SequenceAnalysis"
},
{
"@id": "bts:Ethnicity"
},
Expand Down Expand Up @@ -27073,6 +27076,68 @@
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:SequenceAnalysis",
"@type": "rdfs:Class",
"rdfs:comment": "The determination of the sequence of component residues in a macromolecule e.g. amino acids in a protein or nucleotide bases in DNA/RNA or the computational analysis performed to determine the similarities between nonidentical proteins or molecules of DNA or RNA.",
"rdfs:label": "SequenceAnalysis",
"rdfs:subClassOf": [
{
"@id": "bts:ManifestColumn"
}
],
"schema:isPartOf": {
"@id": "http://schema.biothings.io"
},
"schema:rangeIncludes": [
{
"@id": "bts:Unalignedsequenceread"
},
{
"@id": "bts:Alignedsequenceread"
},
{
"@id": "bts:Other"
}
],
"sms:displayName": "sequenceAnalysis",
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:Unalignedsequenceread",
"@type": "rdfs:Class",
"rdfs:comment": "TBD",
"rdfs:label": "Unalignedsequenceread",
"rdfs:subClassOf": [
{
"@id": "bts:SequenceAnalysis"
}
],
"schema:isPartOf": {
"@id": "http://schema.biothings.io"
},
"sms:displayName": "unaligned sequence read",
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:Alignedsequenceread",
"@type": "rdfs:Class",
"rdfs:comment": "TBD",
"rdfs:label": "Alignedsequenceread",
"rdfs:subClassOf": [
{
"@id": "bts:SequenceAnalysis"
}
],
"schema:isPartOf": {
"@id": "http://schema.biothings.io"
},
"sms:displayName": "aligned sequence read",
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:SequencingBatch",
"@type": "rdfs:Class",
Expand Down Expand Up @@ -33634,23 +33699,6 @@
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:SequenceAnalysis",
"@type": "rdfs:Class",
"rdfs:comment": "TBD",
"rdfs:label": "SequenceAnalysis",
"rdfs:subClassOf": [
{
"@id": "bts:Thing"
}
],
"schema:isPartOf": {
"@id": "http://schema.biothings.io"
},
"sms:displayName": "sequenceAnalysis",
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:RunID",
"@type": "rdfs:Class",
Expand Down
Binary file modified current-excel-manifests/Assay16SrRNAseqMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayATACSeqMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayAutoradMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayBisulfiteSeqMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayChIPSeqMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayHICMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayMRIMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayMetabolomicsMetadataTemplate.xlsx
Binary file not shown.
Binary file not shown.
Binary file modified current-excel-manifests/AssayNanostringMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayPETMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayRnaArrayMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayRnaSeqMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssaySTARRSeqMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayScrnaSeqMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssaySnpArrayMetadataTemplate.xlsx
Binary file not shown.
Binary file not shown.
Binary file modified current-excel-manifests/AssayWholeExomeSeqMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/AssayWholeGenomeSeqMetadataTemplate.xlsx
Binary file not shown.
Binary file not shown.
Binary file modified current-excel-manifests/BiospecimenInvitroMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/BiospecimenMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/FileAnnotationTemplate.xlsx
Binary file not shown.
Binary file not shown.
Binary file modified current-excel-manifests/IndividualAnimalMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/IndividualHumanMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/ModeladStrainAnimalMetadataTemplate.xlsx
Binary file not shown.
Binary file modified current-excel-manifests/NeuropathMetadataTemplate.xlsx
Binary file not shown.
Loading