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Contents of this Guide

Introduction to DataScope

DataScope is a web application that allows you to browse and integrate multiple data types and visualize massive amounts of data. Using interactive, linked, dashboards, you can filter the data by attributes you select and view your results in scatterplots, data tables, image grids, and heatmaps.

Using the procedures explained in the DataScope Developer's Guide, you can customize your data, dashboards, and visualizations. This guide explains the way to manipulate the scatterplots, data tables, and image grids you use to visualize your data. This documentation does not yet include information about the heatmap visualization type.

Logging in to DataScope

You must have a Google account to log in to DataScope.

To log in to DataScope

  1. In any browser, go to camicroscope.org/ Exit Disclaimer logo .
    The caMicroscope Login page appears.
  2. Click Google Plus Sign In.
    The Google Offline Access page appears.
    Google Offline Access Request page. caMicroscope would like to have offline access. Deny or Allow.
  3. Click Allow.
    The caMicroscope page of product options appears.
  4. Scroll down to the DataScope - beta release section and click DataScope button.
    A demo of DataScope appears, which includes data from a co-clinical study. This data includes clinical, radiology, and pathology data, and pathology images from UC Davis and the TCGA BRCA study.

    Integrative Data Query window highlighting the arrow next to the Filtering Attributes and the three visualization tabs

Filtering the Data

DataScope includes many filters for adjusting your view of the data. The filters that appear are those that an administrator has customized for your use with DataScope and are not necessarily represented in the screenshots in this guide. Filters are cumulative, which means that you can apply multiple filters to help narrow down your results.

For a more convenient view of the filtering options, click the arrow at the top of the Filtering Attributes panel. This expands the view of the filtering attributes so that they fill the screen.

Arrow in the Filtering Attributes panel

All of the filtering attributes appear, as well as a Download link, for downloading a spreadsheet of the data after you have (or have not) filtered it.

Filtering Attributes of the Integrative Data Query Application

You can also continue to view the filtering attributes vertically and hide the panels you do not want to use. Hide a panel by clicking the minus sign in the panel's upper left. Show it by clicking the plus sign in the panel's upper right.

In the following example, the Group and Disease-Free Months panels are open.

Filtering Attributes panels in the open position

In the following example, all of the filtering attribute panels are hidden.

Clearing Filters

You must clear each filter individually by clicking Clear Filter button in each panel. As you clear a filter, the number of records that meet your filtering criteria likely increases. You may want to note a control value, such as the number of records in the group, to illustrate the change in selected records as you apply filters.

Bar Graphs

You apply filtering attributes differently depending on their graph type.

To filter attributes using a bar graph, click one or more bars. Selecting a bar may influence the availability of other bars.

In the following graph, none of the stages have been selected and each bar is represented by a different color.

Neoplasm Disease Stages Bar Graph

In the following graph, Stage IIA has been selected, making the other bars unavailable for selection.

Neoplasm Disease Stage graph, Stage IIA selected

Pie Charts

To filter using a pie chart, click one or more pieces of the pie.

In the following chart, none of the categories have been selected.

Disease-Free Status Pie Chart

In the following chart, the DiseaseFree category has been selected and the other categories are not available.

Disease-Free Status, DiseaseFree selected

Histograms

To filter attributes using a histogram, you have two options that accomplish the same thing:

  • Click and drag the brackets to select a range. Click anywhere in the chart to show the brackets
  • Enter the values of the range in the boxes below the chart.

In the following histogram, no values have been selected yet.

Disease-Free Months

In the following histogram, a range has been selected, which exists between the brackets and appears in the range boxes below the chart. The values are entered automatically as you move the brackets.

Disease-Free Months histogram, with the range of 21.7777 to 68.4444 selected

Understanding the Visualization Types

You can continue filtering your data on one of the four visualization types: data table, bubble chart, image grid, and heatmap. The filters are cumulative; that is, if you have already applied the filtering attributes discussed above to show only one age group, for example, you can further narrow down your selection by selecting a portion of the bubble chart, image grid, or heatmap. Data tables are an exception; you can only narrow down that selection by clicking a row in the table and showing the details for that row.

Using a Data Table

Provides a tabular representation of the provided attributes. Shows 100 records at a time.

Using a Bubble Chart

A bubble chart is a variation of a scatter chart in which the data points are replaced with bubbles, and an additional dimension of the data is represented in the size of the bubbles. Can be used to visualize 4 dimensions.

Using an Image Grid

A list of images that is by default two columns but expands to add more columns when more screen real estate becomes available.

Heatmap

A heatmap is a graphical representation of data where the individual values contained in a matrix are represented by colors.

 

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