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•
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In this
Volcano Plot
, e
ach point represents the comparison of a site to all other sites. This comparison is used to determine whether there is a difference in
distribution
for the last digit for a findings test with numeric data available and is done for all sites across all tests in all findings domains.
|
The
Y
axis is the
-log
10
(Raw Row Mean Score
p-value
), which takes advantage of the ordinality of the final digit value, This test uses standardized midrank scores in case there are gaps due to certain digit values not present. Midranks are a way of scoring the columns when the distance between levels does not necessarily have a practical interpretation. Large numbers on the
Y
axis indicate statistically significant results.
Values far from 0 indicate important differences between a site and the reference distribution of all other sites. An
FDR
(
alpha
=0.05) line is indicated by the dotted red line. Values above this line can be considered significant adjusting for multiple comparisons. This could identify rounding issues or other problems with how a site reports a particular test compared to other sites.
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•
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A data filter enables you to subset subjects based on study site, test, and digit. Refer to
Data Filter
for more information.
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•
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One
Data Filter
.
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Enables you to subset subjects based on study site, test, and digit. Refer to
Data Filter
for more information.
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Show Sites
: Shows the rows of the data table for the selected points from the
volcano plot
. Use your mouse to select one or more sites of interest before clicking this button, as shown below:
|
opens the following table:
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•
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Digit Bar Charts
: Clicking
displays a
bar chart
, comparing the last digit distribution between selected sites versus all others, for the points selected in the table. This gives the user the ability to compare just how different each site is for a particular test. The underlying data table is available by going to
Script > Data Table
. The following chart shows the sites/tests selected above:
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Click
to view the associated data tables. Refer to
View Data
for more information.
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•
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Click
to generate a standardized
pdf
- or
rtf
-formatted report containing the plots and charts of selected sections.
|
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•
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Click
to take notes, and store them in a central location. Refer to
Add Notes
for more information.
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•
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Click
to read user-generated notes. Refer to
View Notes
for more information.
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Click the
arrow to reopen the completed report dialog used to generate this output.
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•
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Click the gray border to the left of the
Options
tab to open a dynamic report navigator that lists all of the reports in the review. Refer to
Report Navigator
for more information.
|
Compare the observed distribution of the last or first digit for each test with each site (the suspect site, indexed with
s
) compared to all other sites taken together as a reference (indexed as
o
).
Compared using a row mean score
chi
-square tests (Stokes
et al
., 2012)
2
to take advantage of the ordinality of the column variable.
, often used when column values cannot necessarily be considered equally spaced (which tends to happen if not all digits are presented).
FDR
p
-values are calculated and the reference line is determined as described in
How does JMP Clinical calculate the False Discovery Rate (FDR)?
.
Analyze all tests from all findings domains
,
Findings Tests
,
Analyze:
,
Consider BY variables in the analysis
This is the maximum of (
p(0 in suspect) - p(0 in reference
),
p(1 in suspect) - p(1 in reference)
, …
p(9 in suspect) - p(9 in reference)
) where
p(x)
is the percent of records,
suspect
is the site in question and
reference
is all other sites that are not the site in question.
Subject-specific filters must be created using the
Create Subject Filter
report prior to your analysis.
For more information about how to specify a filter using this option, see
The SAS WHERE Expression
.