User Tools

Site Tools


hapmap

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Next revision
Previous revision
hapmap [2008/01/15 16:25] – created heidihapmap [2008/07/22 13:31] (current) – external edit 127.0.0.1
Line 2: Line 2:
   * The header of Hapmap format files looks like: ''rs#SNPalleleschromposstrand genome_build centerprotLSID assayLSIDpanelLSIDQC_code'' followed by a list of sample identifiers.   * The header of Hapmap format files looks like: ''rs#SNPalleleschromposstrand genome_build centerprotLSID assayLSIDpanelLSIDQC_code'' followed by a list of sample identifiers.
  
-  * a sample line of the hapmap format genotype file: +  * a sample line of the hapmap format genotype file: <code>
-<code>+
 rs169757 A/C Chr21 9928594 + ncbi_b35.1 broad urn:LSID:affymetrix.hapmap.org:Protocol:genotype_protocol_1:1 urn:LSID:affymetrix.hapmap.org:Assay:1612756:1 urn:lsid:dcc.hapmap.org:Panel:CEPH-30-trios:1 QC+ AC AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AC AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AC AA AC AA AA AA AA AA AA AA AA AC AA AA AC AC AA AA AA AA AA AA AA AA rs169757 A/C Chr21 9928594 + ncbi_b35.1 broad urn:LSID:affymetrix.hapmap.org:Protocol:genotype_protocol_1:1 urn:LSID:affymetrix.hapmap.org:Assay:1612756:1 urn:lsid:dcc.hapmap.org:Panel:CEPH-30-trios:1 QC+ AC AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AC AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AA AC AA AC AA AA AA AA AA AA AA AA AC AA AA AC AC AA AA AA AA AA AA AA AA
 </code> </code>
Line 23: Line 22:
 | genotypes | A pair of letters, with each letter chosen from the set of (A,G,C,T,N), e.g. AG | | genotypes | A pair of letters, with each letter chosen from the set of (A,G,C,T,N), e.g. AG |
  
 +\\
   * Note that all columns are case-sensitive if not mentioned otherwise, no space is allowed within each column   * Note that all columns are case-sensitive if not mentioned otherwise, no space is allowed within each column
  
hapmap.1200410700.txt.gz · Last modified: 2008/07/22 13:30 (external edit)