Cluster Subjects within Study Sites
clusters subjects within study site for the purpose of identifying similar subjects. It constructs a cross domain data set using as much data as possible (subject to user options). Next, it computes a
distance matrix
and performs
hierarchical clustering
of subjects within each study center. The goal of this exercise is to identify pairs of subjects with a very small distance. This could be an indication that these subject are slightly modified copies of one another.
Running this report for
Nicardipine
using default settings generates the report shown below.
The
Cluster Subjects Within Study Sites
report shows the results of clustering of the subjects on the basis of different combinations of covariates. The results for each grouping are presented on a separate “tab”.
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 section in the
Results
pane or remove the section and its contents from the
Results
pane.
Note
: You might need to expand this pane to surface a scroll bar if the number of sections exceeds the spaces allotted.
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Between-Subject Distance Summary
: This tab presents
box plots
of the pairwise Euclidian Distances between subjects presented by site. The Euclidian Distance is calculated within study site. A
Box Plot
of the minimum pairwise distance taken from each site is presented.
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Site XX Distance Matrix
: A box plot of all pairwise distances is presented as well as a
Heat Map and Hierarchical Clustering
display (using the
Average
method) to determine whether there are sets of subjects that are very similar. There is one tab for each study site in the trial. However, only the site with the minimum pairwise distance is opened to minimize effects on performance. Other sections can be opened using the
Results Sections
menu.
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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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Profile Subjects
: Select subjects and click
to generate the patient profiles. See
Profile Subjects
for additional information.
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Show Subjects
: Select subjects and click
to open the
ADSL
(or
DM
if
ADSL
is unavailable) of selected subjects.
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Show Rows in Heat Map
: Select points that represent pairs of subjects in the
Box Plot
s
and click
to highlight the subjects within the
Heat Map and Dendrogram
to see how they cluster together.
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Subset Clustering
: On a subgroup
clustering
page, subsets clustering to subjects, based on pairs selected from corresponding box plot.
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Revert Clustering
: Click
to return a subset clustering to the original state where all subjects are clustered.
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Click
to view the associated data tables. Refer to
View Data
for more information.
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Output includes one summary data set (named
cswss_sum_XXX
1
, by default) containing one record per subject with selected data, one data set of all pairwise distances within the site (named
cswss_alldist_XXX
, by default), one data set containing minimum pairwise distances for each site (named
cswss_mindist_XXX
), by default), one data set per site containing pairwise distances (named
cswss_p_Y_XXX
, by default, where
Y
is site number or indexed 1 to the number of sites) and one data set per site containing the
distance matrix
of subjects within the
covariate
subgroup (named
cswss_Y_XXX
, by default, where
Y
is site number or indexed 1 to the number of sites).
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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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Click
to take notes, and store them in a central location. Refer to
Add Notes
for more information.
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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 process dialog used to generate this output.
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The
_XXX
designation is used to designate a one- to three-digit number that is added sequentially to prevent overwriting of existing data sets.