Genomics Reporting Implementation Guide, published by HL7 International / Clinical Genomics. This guide is not an authorized publication; it is the continuous build for version 4.0.0-ballot built by the FHIR (HL7® FHIR® Standard) CI Build. This version is based on the current content of https://github.com/HL7/genomics-reporting/ and changes regularly. See the Directory of published versions
| Official URL: http://hl7.org/fhir/uv/genomics-reporting/ValueSet/genomic-study-data-format-vs | Version: 4.0.0-ballot | |||
| Standards status: Trial-use | Maturity Level: 2 | Computable Name: GenomicStudyDataFormatVS | ||
Backport of http://hl7.org/fhir/ValueSet/genomicstudy-dataformat
References
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs version 📦4.0.0-ballot
Expansion performed internally based on codesystem Genomic Study Data Format CodeSystem v4.0.0-ballot (CodeSystem)
This value set contains 40 concepts
| System | Code | Display (en) | JSON | XML |
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | bam | BAM | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | bed | BED | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | bedpe | BEDPE | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | bedgraph | BedGraph | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | bigbed | bigBed | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | bigWig | bigWig | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | birdsuite-files | Birdsuite-Files | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | broadpeak | broadPeak | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | cbs | CBS | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | chemical-reactivity-probing-profiles | Chemical-Reactivity-Probing-Profiles | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | chrom-sizes | chrom-sizes | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | cn | CN | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | custom-file-formats | Custom-File-Formats | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | cytoband | Cytoband | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | fasta | FASTA | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | gct | GCT | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | cram | CRAM | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | genepred | genePred | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | gff-gtf | GFF/GTF | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | gistic | GISTIC | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | goby | Goby | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | gwas | GWAS | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | igv | IGV | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | loh | LOH | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | maf-multiple-alignment-format | MAF-Multiple Alignment Format | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | maf-mutation-annotation-format | MAF-Mutation-Annotation-Format | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | merged-bam-file | Merged BAM File | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | mut | MUT | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | narrowpeak | narrowPeak | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | psl | PSL | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | res | RES | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | rna-secondary-structure-formats | RNA-Secondary-Structure-Formats | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | sam | SAM | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | sample-info-attributes-file | Sample-Info-Attributes-file | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | seg | SEG | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | tdf | TDF | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | track-line | Track Line | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | type-line | Type Line | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | vcf | VCF | ||
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs | wig | WIG |
Explanation of the columns that may appear on this page:
| Level | A few code lists that FHIR defines are hierarchical - each code is assigned a level. In this scheme, some codes are under other codes, and imply that the code they are under also applies |
| System | The source of the definition of the code (when the value set draws in codes defined elsewhere) |
| Code | The code (used as the code in the resource instance) |
| Display | The display (used in the display element of a Coding). If there is no display, implementers should not simply display the code, but map the concept into their application |
| Definition | An explanation of the meaning of the concept |
| Comments | Additional notes about how to use the code |