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:

CodeDisplay
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>