Running this process for the
GeneticMarkerExample
sample setting generates two output data sets accessed from a
Results
window shown below. Refer to the
Recode Genotypes
process description for more information about this process.
The
Results
window contains the following panes:
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Output Genotype Data Set:
The
output data set containing the
genotype
data from the input data set recoded as specified in the process
dialog
. In this example, the input data set was converted from a two-column to a one-column format. Furthermore, markers were relabeled at each
locus
using the names supplied by the
annotation data set
. Compare the genotypes at marker 1 for the first 10 individuals (shown below).
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The panel on the left, which comes from the input data set, shows the genotypes for the first ten individuals at marker 1, in the two-column allelic format. Two
alleles
are present at this
locus
, with allele "1" being the most common. The panel on the right, which comes from the output data set, shows the same data; the genotypes have been converted to the one-column, genotypic format, and recoded for analysis. Individuals
homozygous
for allele 2, the least common or
minor allele
, are represented in the output with a "2", whereas the heterozygotes are represented with a "1". Examination of additional individuals and different marker loci shows that homozygotes for the most common allele are represented in the output with a "0".
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Annotation Data Set
: This data set contains all of the annotation data from the input
annotation data set
along with additional columns containing the names of the original allele columns that were concatenated to make a genotype column, and the new
_MajorAllele_
and
_MinorAllele_
columns, indicating which alleles are the major and minor alleles, respectively, for that marker.
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For detailed information about the files and data sets used or created by JMP Life Sciences software, see
Files and Data Sets
.
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Click
to reopen the completed process dialog used to generate this output.
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Click
to close all graphics windows and underlying data sets associated with the output.
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