pgd_diffdatatypes
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PGD file example
Data of two loci with different data types (Standard and DNA) from two diploid populations:
<?xml version="1.0" encoding="iso-8859-1"?> <?xml-stylesheet type="text/xsl" href="stylesheet_PGD.xsl"?> <PGD> <header title="Fake HLA data"> <numPop> 2 </numPop> <ploidy> 1 </ploidy> <aligned> yes </aligned> <missing> ? </missing> <gap> - </gap> <gameticPhase> known </gameticPhase> </header> <dataDescription> <numLoci> 2 </numLoci> <dataType> mixed </dataType> <locus id="loci one"> <locusDataType> Standard </locusDataType> <locusChromosome> 3 </locusChromosome> <locusLocation> Hs8_23892 </locusLocation> </locus> <locus id="loci two"> <locusDataType> DNA </locusDataType> <locusChromosome> 3 </locusChromosome> <locusLocation> Hs8_23992 </locusLocation> <locusLength> 29 </locusLength> </locus> </dataDescription> <population name="A sample of 6 Algerians"> <popSize> 7 </popSize> <ind name="1"> <indLoci> loci one </indLoci> <data> 1104 </data> </ind> <ind name="2"> <indLoci> loci one </indLoci> <data> 0302 </data> </ind> <ind name="3"> <indLoci> loci one </indLoci> <data> 0402 </data> </ind> <ind name="1"> <indLoci> loci two </indLoci> <data> GACTCTCTACGTAGCATCCGATGACGATA </data> </ind> <ind name="2"> <indLoci> loci two </indLoci> <data> GACTGTCTGCGTAGCATACGACGACGATA </data> </ind> <ind name="3"> <indLoci> loci two </indLoci> <data> GCCTGTCTGCGTAGCATAGGATGACGATA </data> </ind> <ind name="4"> <indLoci> loci two </indLoci> <data> GACTCTCTACGTAGCATCCGATGACGATA </data> </ind> </population> <population name="A sample of 11 Bulgarians"> <popSize>4</popSize> <ind name="5"> <indLoci> loci one </indLoci> <data> 1103</data> </ind> <ind name="6"> <indLoci> loci one </indLoci> <data> 1101</data> </ind> <ind name="5"> <indLoci> loci two </indLoci> <data> GCCTGTCTGCGTAGCATAGGATGACGATA </data> </ind> <ind name="6"> <indLoci> loci two </indLoci> <data> GACTCTCTACGTAGCATCCGATGACGATA </data> </ind> </population> <structure name="My population structure"> <numGroups> 2 </numGroups> <group>A sample of 6 Algerians </group> <group>A sample of 11 Bulgarians </group> </structure> <distanceMatrix name="Faked distance matrix"> <matrixSize> 6 </matrixSize> <matrixLabels> 1, 2, 3, 5, 6 </matrixLabels> <matrix> 0 1, 0 3, 4, 0 5, 3, 2, 0 6, 5, 4, 3, 0 </matrix> </distanceMatrix> </PGD>
pgd_diffdatatypes.1310047810.txt.gz · Last modified: 2011/07/07 16:10 by heidi