Running this process using the
GeneticMarkerExample
sample setting generates the tabbed
Results
window shown below. Refer to the
htSNP Selection
process description for more information. Output from the process is organized into tabs. Each tab contains one or more plots, data panels, data filters, and so on. that facilitate your analysis.
This pane enables you to access and view the output plots and associated data sets on each tab. Use the drop-down menu to view the tab in the
Tab Viewer
pane, open the tab in a new window, or remove the tab and its contents from the
Tab Viewer
pane.
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All Results (htSNP Selection)
: This tab displays for each annotation group an
overlay plot
, or set of plots if
BY variables
have been specified, with circles at the location of the markers that have been selected as a set of
htSNPs
on the
x
-axis, and the value of the selected criterion, either
PDE
or
RSQH
(specified using the
Criterion for Evaluating Sets of htSNPs
parameter), on the
y
-axis for that set.
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Annotation Group Results
: When there are multiple annotation groups (
chromosomes
or genes, for example), a separate
Results
tab is created for each annotation group with an overlay plot of
p-value
by chromosome location of the first marker in the marker windows.
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In this example, there are two annotation groups (CandGene 1, and CandGene 2) and, thus two Annotation Group Results tabs (
CandGene 1 Results
and
CandGene 2 Results
).
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GenBank Nucleotide
: Select points or rows and click
to opens a browser window directed to a GenBank Nucleotide search for the selected molecular entities.
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UniGene Database
: Select points or rows and click
to access information from the Unigene database for selected genes or markers
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AceView Database
: Select points or rows and click
to access information from the ACEView database for selected genes or markers.
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HTSNP Indicator Data Set
: This data set contains the
variables
from the
annotation data set
plus an htSNP Indicator variable (
htSNPInd
) that contains a 1 for SNPs that are in the best set of
htSNPs
for that set/window of markers, 0 for those included in the search but not selected as htSNPs, and missing (.) for the markers not included in the search (due to low frequency for the
haplotype
that they occur in, for example).
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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 reveal the underlying data table associated with the current tab.
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Click
to reopen the completed process dialog used to generate this output.
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Click
to generate a
pdf
- or
rtf
-formatted report containing the plots and charts of selected tabs.
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Click
to close all graphics windows and underlying data sets associated with the output.
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