Generated Narrative: CodeSystem genomicstudy-dataformat

Last updated: 2021-01-05T10:01:24.148+11:00

Profile: Shareable CodeSystem

This case-sensitive code system http://hl7.org/fhir/genomicstudy-dataformat defines the following codes:

Code Display
bam BAM
bed BED
bedpe BEDPE
bedgraph BedGraph
bigbed bigBed
bigWig bigWig
birdsuite-files Birdsuite-Files
broadpeak broadPeak
cbs CBS
chemical-reactivity-probing-profiles Chemical-Reactivity-Probing-Profiles
chrom-sizes chrom-sizes
cn CN
custom-file-formats Custom-File-Formats
cytoband Cytoband
fasta FASTA
gct GCT
cram CRAM
genepred genePred
gff-gtf GFF/GTF
gistic GISTIC
goby Goby
gwas GWAS
igv IGV
loh LOH
maf-multiple-alignment-format MAF-Multiple Alignment Format
maf-mutation-annotation-format MAF-Mutation-Annotation-Format
merged-bam-file Merged BAM File
mut MUT
narrowpeak narrowPeak
psl PSL
res RES
rna-secondary-structure-formats RNA-Secondary-Structure-Formats
sam SAM
sample-info-attributes-file Sample-Info-Attributes-file
seg SEG
tdf TDF
track-line Track Line
type-line Type Line
vcf VCF
wig WIG
<status value="active"/> <experimental value="true"/> <date value="2022-08-17T14:49:24-05:00"/> <publisher value="HL7 (FHIR Project)"/> <contact> <telecom> <system value="url"/> <value value="http://hl7.org/fhir"/> </telecom> <telecom> <system value="email"/> <value value="fhir@lists.hl7.org"/> </telecom> </contact> <description value="The data format relevant to genomics. These formats and relevant codes were pulled from [Integrative Genomics Viewer Documentation](https://software.broadinstitute.org/software/igv/FileFormats) by Broad Institute."/> <jurisdiction> <coding> <system value="http://unstats.un.org/unsd/methods/m49/m49.htm"/> <code value="001"/> <display value="World"/> </coding> </jurisdiction> <caseSensitive value="true"/> <valueSet value="http://hl7.org/fhir/ValueSet/genomicstudy-dataformat"/> <content value="complete"/> <concept> <code value="bam"/> <display value="BAM"/> </concept> <concept> <code value="bed"/> <display value="BED"/> </concept> <concept> <code value="bedpe"/> <display value="BEDPE"/> </concept> <concept> <code value="bedgraph"/> <display value="BedGraph"/> </concept> <concept> <code value="bigbed"/> <display value="bigBed"/> </concept> <concept> <code value="bigWig"/> <display value="bigWig"/> </concept> <concept> <code value="birdsuite-files"/> <display value="Birdsuite-Files"/> </concept> <concept> <code value="broadpeak"/> <display value="broadPeak"/> </concept> <concept> <code value="cbs"/> <display value="CBS"/> </concept> <concept> <code value="chemical-reactivity-probing-profiles"/> <display value="Chemical-Reactivity-Probing-Profiles"/> </concept> <concept> <code value="chrom-sizes"/> <display value="chrom-sizes"/> </concept> <concept> <code value="cn"/> <display value="CN"/> </concept> <concept> <code value="custom-file-formats"/> <display value="Custom-File-Formats"/> </concept> <concept> <code value="cytoband"/> <display value="Cytoband"/> </concept> <concept> <code value="fasta"/> <display value="FASTA"/> </concept> <concept> <code value="gct"/> <display value="GCT"/> </concept> <concept> <code value="cram"/> <display value="CRAM"/> </concept> <concept> <code value="genepred"/> <display value="genePred"/> </concept> <concept> <code value="gff-gtf"/> <display value="GFF/GTF"/> </concept> <concept> <code value="gistic"/> <display value="GISTIC"/> </concept> <concept> <code value="goby"/> <display value="Goby"/> </concept> <concept> <code value="gwas"/> <display value="GWAS"/> </concept> <concept> <code value="igv"/> <display value="IGV"/> </concept> <concept> <code value="loh"/> <display value="LOH"/> </concept> <concept> <code value="maf-multiple-alignment-format"/> <display value="MAF-Multiple Alignment Format"/> </concept> <concept> <code value="maf-mutation-annotation-format"/> <display value="MAF-Mutation-Annotation-Format"/> </concept> <concept> <code value="merged-bam-file"/> <display value="Merged BAM File"/> </concept> <concept> <code value="mut"/> <display value="MUT"/> </concept> <concept> <code value="narrowpeak"/> <display value="narrowPeak"/> </concept> <concept> <code value="psl"/> <display value="PSL"/> </concept> <concept> <code value="res"/> <display value="RES"/> </concept> <concept> <code value="rna-secondary-structure-formats"/> <display value="RNA-Secondary-Structure-Formats"/> </concept> <concept> <code value="sam"/> <display value="SAM"/> </concept> <concept> <code value="sample-info-attributes-file"/> <display value="Sample-Info-Attributes-file"/> </concept> <concept> <code value="seg"/> <display value="SEG"/> </concept> <concept> <code value="tdf"/> <display value="TDF"/> </concept> <concept> <code value="track-line"/> <display value="Track Line"/> </concept> <concept> <code value="type-line"/> <display value="Type Line"/> </concept> <concept> <code value="vcf"/> <display value="VCF"/> </concept> <concept> <code value="wig"/> <display value="WIG"/> </concept> </CodeSystem>