Genomics Reporting Implementation Guide
4.0.0-cibuild - CI Build International flag

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

Logical Definition (CLD)

 

Expansion

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

This value set contains 40 concepts

SystemCodeDisplay (en)DefinitionJSONXML
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  bamBAMBAM
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  bedBEDBED
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  bedpeBEDPEBEDPE
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  bedgraphBedGraphBedGraph
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  bigbedbigBedbigBed
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  bigWigbigWigbigWig
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  birdsuite-filesBirdsuite-FilesBirdsuite-Files
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  broadpeakbroadPeakbroadPeak
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  cbsCBSCBS
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  chemical-reactivity-probing-profilesChemical-Reactivity-Probing-ProfilesChemical-Reactivity-Probing-Profiles
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  chrom-sizeschrom-sizeschrom-sizes
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  cnCNCN
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  custom-file-formatsCustom-File-FormatsCustom-File-Formats
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  cytobandCytobandCytoband
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  fastaFASTAFASTA
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  gctGCTGCT
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  cramCRAMCRAM
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  genepredgenePredgenePred
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  gff-gtfGFF/GTFGFF/GTF
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  gisticGISTICGISTIC
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  gobyGobyGoby
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  gwasGWASGWAS
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  igvIGVIGV
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  lohLOHLOH
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  maf-multiple-alignment-formatMAF-Multiple Alignment FormatMAF-Multiple Alignment Format
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  maf-mutation-annotation-formatMAF-Mutation-Annotation-FormatMAF-Mutation-Annotation-Format
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  merged-bam-fileMerged BAM FileMerged BAM File
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  mutMUTMUT
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  narrowpeaknarrowPeaknarrowPeak
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  pslPSLPSL
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  resRESRES
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  rna-secondary-structure-formatsRNA-Secondary-Structure-FormatsRNA-Secondary-Structure-Formats
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  samSAMSAM
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  sample-info-attributes-fileSample-Info-Attributes-fileSample-Info-Attributes-file
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  segSEGSEG
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  tdfTDFTDF
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  track-lineTrack LineTrack Line
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  type-lineType LineType Line
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  vcfVCFVCF
http://hl7.org/fhir/uv/genomics-reporting/CodeSystem/genomic-study-data-format-cs  wigWIGWIG

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