Expression Value Distribution - Revision history

Smith at 22:09, 6 March 2015

2015-03-06T22:09:58Z

Smith at 22:05, 6 March 2015

2015-03-06T22:05:59Z

Smith: /* Overview */

2015-03-06T22:03:43Z

‎Overview

Smith at 21:44, 6 March 2015

2015-03-06T21:44:12Z

Smith: /* Controls */

2014-01-22T20:27:36Z

‎Controls

Smith at 22:03, 8 March 2012

2012-03-08T22:03:58Z

Smith: moved Tutorial - EVD to Expression Value Distribution

2010-12-09T22:04:03Z

moved Tutorial - EVD to Expression Value Distribution

Smith: /* Outline */

2010-02-23T00:23:50Z

‎Outline

Smith at 22:41, 22 December 2006

2006-12-22T22:41:57Z

New page

{{TutorialsTopNav}}

==Outline==
This tutorial will cover:
*

==Overview==
The Expression Value Distribution component plots a histogram of expression values versus their frequency of occurence. It is a useful tool for inspecting the data of an array or experiment. It can display results from a single or from multiple arrays. It also allows genes showing expression within a given range of values to be selected through use of range sliders. If the data has been classified into case/control groups, a t-test can be performed within the component. The resulting t-statistics for each gene are then displayed on the same type of histogram.

[[Image:T_EVD.png]]

EVD for the file webmatrix2.exp after quantile normalization and log2 transformat.

==Using the EVD component==

# Read in a microarray data file such as webmatrix2.exp (see the tutorial data download page).
# View the data in the EVD component.
# ....to be continued!!....

← Older revision		Revision as of 22:09, 6 March 2015
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	EVD for the file Bcell-100.exp after log2 transformation, and two array sets activated. The first set is shown in blue, the second in green. The currently selected base array is shown in red (controlled by the slider).		EVD for the file Bcell-100.exp after log2 transformation, and two array sets activated. The first set is shown in blue, the second in green. The currently selected base array is shown in red (controlled by the slider).
		+
		+
		+	[[Image:EVD_plot_t-test.png]]
		+
		+	EVD t-test for activated case and control array sets as shown in Arrays component to left.

	==Controls==		==Controls==

@@ Line 24: / Line 24: @@
 [[Image:EVD_plot_two_array_sets.png]]
-EVD for the file Bcell-100.exp after log2 transformation, and two array sets activated.
+EVD for the file Bcell-100.exp after log2 transformation, and two array sets activated.  The first set is shown in blue, the second in green.  The currently selected base array is shown in red (controlled by the slider).
 ==Controls==

← Older revision		Revision as of 22:03, 6 March 2015
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	EVD for the file Bcell-100.exp after quantile normalization and log2 transformation.		EVD for the file Bcell-100.exp after quantile normalization and log2 transformation.
		+
		+
		+
		+	[[Image:EVD_plot_two_array_sets.png]]
		+
		+	EVD for the file Bcell-100.exp after log2 transformation, and two array sets activated.

	==Controls==		==Controls==

← Older revision		Revision as of 21:44, 6 March 2015
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−	[[Image:~~T_EVD~~.png]]	+	[[Image:EVD_plot.png]]

	EVD for the file Bcell-100.exp after quantile normalization and log2 transformation.		EVD for the file Bcell-100.exp after quantile normalization and log2 transformation.

@@ Line 34: / Line 34: @@
 * Legend: A legend appears at the bottom of the plot indicating which color and shape corresponds to which set. Modification of image display preferences are described in details in Preferences. The base array always list as the first one.
-* Image Snapshot: Clicking on this button creates image snapshots that are saved in the project.
+* Image Snapshot: Clicking on this button creates image snapshots that are saved in the [[Workspace]].
 * Zoom: Zooming in can be down by left clicking and drag down over a region of the image or selecting right clicks Zoom In option. Zooming out, left clicks and drag upward or right click and select Zoom Out option.

@@ Line 5: / Line 5: @@
 ==Overview==
-The Expression Value Distribution component plots a histogram of expression values versus their frequency of occurence.  It is a useful tool for inspecting the data of an array or experiment.  It can display results from a single or from multiple arrays.  It also allows genes showing expression within a given range of values to be selected through use of range sliders.  If the data has been classified into case/control groups, a t-test can be performed within the component.  The resulting t-statistics for each gene are then displayed on the same type of histogram.
 [[Image:T_EVD.png]]
-EVD for the file webmatrix2.exp after quantile normalization and log2 transformat.
+EVD for the file Bcell-100.exp after quantile normalization and log2 transformation.
-==Using the EVD component==
+* Print: Prints the displayed EVD. The print dialog pop up is displayed to support printer selection.
-# Read in a microarray data file such as webmatrix2.exp (see the tutorial data download page).
+* Selected Values from/to: The starting/ending X axis location that allow markers to be selected graphically and filtered. The number of current selected genes is displayed next to the Total bins. “Add to Panel” button adds the selected genes to the Gene Panel.

← Older revision	Revision as of 22:04, 9 December 2010
(No difference)

← Older revision		Revision as of 00:23, 23 February 2010
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−	~~==Outline==~~	+
−	~~This tutorial will cover:~~
−	*

	==Overview==		==Overview==