ImAnno

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ImAnno is the Genoret Image Annotation Tool
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This page is now available at http://lbgi.igbmc.fr/wikili/index.php/ImAnno
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''ImAnno'' is a web based annotation tool
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=REST BECOMES OBSOLETE=
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It will allow the annotaion of all kind of images through a web interface available to all [[EVI-Genoret member]]s
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The annotations are stored in the [[Genoret Database]] and can be retrieved and queried by the Genoret search engines.
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The first goal of ''ImAnno'' was to allow the annotation of thousands of the In Situ Hybridization images provided by [http://genepaint.org/ GenePaint].
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ImAnno is the Image Annotation Tool
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This is a part of the [http://www-genoret.u-strasbg.fr/genoret/ImAnno/index.php? Genoret project developped by WP4].
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* [[ImAnno Standard Operation Procedure]]
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One annotation is related to one or several images.
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==Definition==
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The images are referenced by local or foreign http links.
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''ImAnno'' is a web based annotation tool.
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These links are stored in the database and can be sorted manually.
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The display of the image is made through these links using the "show image" button.
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An annotation consists of several annotation fields :
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It allows the annotation of all kind of images, texts, "concepts" through a web interface.
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For each annotation field are defined
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<br/>
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* a title
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The annotations are stored in the relational database]] and can be retrieved and queried through a powerfull search engine.
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* 2 or more radio buttons with exclusive choice
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* a keywords select field
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==First Goal of ImAnno==
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* a freecomment field
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The first goal of ''ImAnno'' was to allow the annotation of thousands of the In Situ Hybridization images provided by [http://genepaint.org/ GenePaint] within the [http://www.eurexpress.org/ee/project/intro.html EurExpress project].
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The labels of the radio buttons and keywords can be specific to each field.
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This annotation program is a part of the [http://www-genoret.u-strasbg.fr/genoret/ImAnno Genoret project developped by WP4]. See the [http://www-genoret.u-strasbg.fr/genoret/Project/phrame.php?action=doShowOneDatafile&pk=531 Poster of ImAnno] made by Laura Cammas for the Midterm Review Meeting 2007/03/18-21 in Paris
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* [[ImAnno Standard Operation Procedure]]
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* [[ImAnno Search Tool]]
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* See the [http://www-genoret.u-strasbg.fr/genoret/Project/phrame.php?action=doShowOneDatafile&pk=909 Rapport de Stage] from Nicolas Eschbach
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==What is stored==
 +
One annotation is related to one or several images (or even something else).
 +
The images are referenced by local or foreign http links.
 +
These links are stored in the database and can be sorted manually.
 +
The display of the image is made through these links using the "show image" button.
 +
 
 +
An annotation consists of several annotation fields :
 +
<br/>
 +
For each annotation field are defined
 +
 
 +
* a title
 +
* 2 or more radio buttons with exclusive choice
 +
* a keywords select field
 +
* a freecomment field
 +
The labels of the radio buttons and keywords can be specific to each field.
 +
 
 +
==What about the images==
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In some cases the ImAnno annotation can be illustrated with images on which the annotation values are dispalyed through colors.
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To create an ImAnno set of images :
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# create a colored image with Powerpoint or Inkscape
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# use the color ramp according to the tissue order (the fist one 0 is black)
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# save the file as ImAnnoTissue-organ-body-show-600.png -300 -150
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# remove the color ramp and save the same sizes with a yellow background
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# run Execute.php?ImAnnoCreateFiles$organ

Current revision

 This page is now available at http://lbgi.igbmc.fr/wikili/index.php/ImAnno

Contents

REST BECOMES OBSOLETE

ImAnno is the Image Annotation Tool

Definition

ImAnno is a web based annotation tool.

It allows the annotation of all kind of images, texts, "concepts" through a web interface.
The annotations are stored in the relational database]] and can be retrieved and queried through a powerfull search engine.

First Goal of ImAnno

The first goal of ImAnno was to allow the annotation of thousands of the In Situ Hybridization images provided by GenePaint within the EurExpress project. This annotation program is a part of the Genoret project developped by WP4. See the Poster of ImAnno made by Laura Cammas for the Midterm Review Meeting 2007/03/18-21 in Paris

What is stored

One annotation is related to one or several images (or even something else). The images are referenced by local or foreign http links. These links are stored in the database and can be sorted manually. The display of the image is made through these links using the "show image" button.

An annotation consists of several annotation fields :
For each annotation field are defined

  • a title
  • 2 or more radio buttons with exclusive choice
  • a keywords select field
  • a freecomment field

The labels of the radio buttons and keywords can be specific to each field.

What about the images

In some cases the ImAnno annotation can be illustrated with images on which the annotation values are dispalyed through colors.

To create an ImAnno set of images :

  1. create a colored image with Powerpoint or Inkscape
  2. use the color ramp according to the tissue order (the fist one 0 is black)
  3. save the file as ImAnnoTissue-organ-body-show-600.png -300 -150
  4. remove the color ramp and save the same sizes with a yellow background
  5. run Execute.php?ImAnnoCreateFiles$organ
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