Genomics Reporting Implementation Guide
4.0.0-cibuild - CI Build

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-cibuild 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

## ValueSet: Genomic Study Data Format ValueSet

Official URL: http://hl7.org/fhir/uv/genomics-reporting/ValueSet/genomic-study-data-format-vs | Version: 4.0.0-cibuild
Standards status: Trial-use | Maturity Level: 2 | Computable Name: GenomicStudyDataFormatVS

Backport of http://hl7.org/fhir/ValueSet/genomicstudy-dataformat

References

- Genomic Study Analysis Input
- Genomic Study Analysis Output

### Logical Definition (CLD)

- Include all codes defined in `http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs` version 📦4.0.0-cibuild

### Expansion

Expansion performed internally based on codesystem Genomic Study Data Format CodeSystem v4.0.0-cibuild (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