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Revision as of 11:35, 27 September 2010
, 11:35, 27 September 2010→Specifying LD source/population/build
The SNP with the most significant p-value in this region will be used for estimating LD.
The SNP with the most significant p-value in this region will be used for estimating LD.
=== Specifying LD source/population/build ===
=== Specifying LD source/population/build ===
We supply genotype files for computing LD between the reference SNP and all other SNPs within the region you are plotting. Currently, we support:
We supply genotype files for computing LD between the reference SNP and all other SNPs within the region you are plotting. The tables below show the supported combinations of LD source, population, and build. Note that you can always provide your own LD files, see [[#User-supplied_LD]] for more information.
'''1000G'''
{| width="75%" cellspacing="0" cellpadding="5" border="1"
|-
! scope="col" | Release
! scope="col" | Build
! scope="col" | Population
! scope="col" | LocusZoom Arguments
|-
| June 2010 || hg18 || CEU || --pop CEU --build hg18 --source 1000G_June2010
|-
| June 2010 || hg18 || YRI || --pop YRI --build hg18 --source 1000G_June2010
|-
| June 2010 || hg18 || JPT+CHB || --pop JPT+CHB --build hg18 --source 1000G_June2010
|-
| August 2009 || hg18 || CEU || --pop CEU --build hg18 --source 1000G_Aug2009
|-
| August 2009 || hg18 || YRI || --pop YRI --build hg18 --source 1000G_Aug2009
|-
| August 2009 || hg18 || JPT+CHB || --pop JPT+CHB --build hg18 --source 1000G_Aug2009
|}
=== Batch mode ===
=== Batch mode ===
