Package net.sf.basedb.clients.web

Class ExperimentExplorer.AnnotationGroup

java.lang.Object
net.sf.basedb.clients.web.ExperimentExplorer.AnnotationGroup
All Implemented Interfaces:
Comparable<ExperimentExplorer.AnnotationGroup>
Enclosing class:
ExperimentExplorer
public static class ExperimentExplorer.AnnotationGroup extends Object implements Comparable<ExperimentExplorer.AnnotationGroup>
An annotation group contains statistical information about the spot values falling into the group.
Version:
2.0
Author:
nicklas
Last modified
$Date: 2021-06-03 13:47:50 +0200 (Thu, 03 Jun 2021) $

  • Field Details

    • id

      private final int id

    • annotationValues

      private final Set<?> annotationValues

    • title

      private final String title

    • sum

      private final float[] sum

    • count

      private final int[] count

    • statistics

      private final Map<String,Float> statistics

    • color

      private String color

  • Constructor Details

    • AnnotationGroup

      private AnnotationGroup(int id, Set<T> annotationValues, int channels, Formatter<T> formatter)

  • Method Details

    • getId

      public int getId()
      The ID of the group. The ID is only useful within the objects AnnotationSummary objects lifetime. The first group that is created is given an ID of 1, the second 2, and so on.
      Returns:
      The ID

    • getTitle

      public String getTitle()
      Get the title of this annotation group. The title is created by concatenating all annotation values.
      Returns:
      The title

    • getAnnotationValues

      public Set<?> getAnnotationValues()
      Get all annotation values in this annotation group.
      Returns:
      A set containing all annotation values

    • getColor

      public String getColor()
      Get a color code for HTML that is as distinct as possible from the color of the other groups. The colors may repeat if there are many groups.
      Returns:
      The color string

    • getAwtColor

      public Color getAwtColor()
      Get the AWT color object that corresponds to the HTML color string. The color string must have been set with a seven-character string with 2 hex characters for every color component, eg. '#rrggbb'.
      Since:
      2.14

    • setColor

      public void setColor(String color)
      Sets the color for this annotation group.
      Parameters:
      color - A HTML color code
      Since:
      2.14

    • addValue

      public void addValue(int channel, float intensity)
      Add an intensity value to this group.
      Parameters:
      channel - The number of the channel, starting with 1
      intensity - The spot's intensity

    • getSum

      public float getSum(int channel)
      Get the sum of intensities for the specified channel.
      Parameters:
      channel - The number of the channel, starting with 1
      Returns:
      The sum of the intensities
      See Also:

    • getCount

      public int getCount(int channel)
      Get the number of intensity values added to the specified channel.
      Parameters:
      channel - The number of the channel, starting with 1
      Returns:
      The number of values
      See Also:

    • getMean

      public float getMean(int channel)
      Get the mean of the intensity values for the given channel.
      Parameters:
      channel - he number of the channel, starting with 1
      Returns:
      The mean of the values, or NaN if no values has been added
      See Also:

    • addStatistics

      public void addStatistics(String key, float value)
      Add another statisitcal measurement to this group. All values with the same key are added together and can be retrieved with the getStatistics(String) method.
      Parameters:
      key - The key for the measurment
      value - The value to add

    • getStatistics

      public float getStatistics(String key)
      Get the sum of all values added with the addStatistics(String, float) method with the given key.
      Parameters:
      key - The measurement key
      Returns:
      The sum of the added values or Float.NaN if no value is found

    • reset

      public void reset()
      Resets all collected statistics in this group.
      Since:
      2.14

    • compareTo

      public int compareTo(ExperimentExplorer.AnnotationGroup o)
      Specified by:
      compareTo in interface Comparable<ExperimentExplorer.AnnotationGroup>