Changes between Version 2 and Version 3 of WikiStart


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Timestamp:
Aug 10, 2011, 1:47:38 PM (8 years ago)
Author:
t.p.gandhi@…
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  • WikiStart

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    11
    2 = Welcome to project db-iga =
     2= About =
    33
    44'''Description of db-iGA:''' To determine which proteins had coenriched with known vacuolar proteins, a modified version of the iterative group analysis (iGA) algorithm is implemented here. For each localization class the list of ranked items is analyzed using the hypergeometric statistics as described previously (1) using all possible windows to define groups. The window that shows the most surprising clustering of proteins from the same localization class, which is the highest probability of change (_log(PC)) value as defined in Breitling et al. (1), is recorded. This procedure, which is called double boundary iGA, is more flexible than the original iGA approach, which only tests windows at the extremes (top or bottom) of the list and would for example miss clustering in the middle. Multiple testing-corrected p values can be determined using random permutations of the item list for each class.
     
    1515[[Image(https://wiki.nbic.nl/images/c/c8/Iga_output_figure.JPG)]]
    1616
    17 == Source access ==
    18 If available, anonymous readonly subversion access works as follows:
    19 {{{
    20   svn co https://trac.nbic.nl/svn/db-iga db-iga
    21 }}}
    22 Write access is only available to registered developers.
    23 
    24 You can become a developer by [https://trac.nbic.nl/index/#register registering yourself] if you haven't already done so,
    25 and requesting write access on the [https://trac.nbic.nl/mailman/listinfo/db-iga-users db-iga-users] mailing list.
    26 
    27 == Starting Points ==
    28 
    29  * TracGuide --  Built-in Documentation
    30  * TitleIndex -- A complete list of local wiki pages.
    31  * [http://trac.edgewall.org/wiki/TracFaq Trac FAQ] -- Frequently Asked Questions
     17== Download ==
     18The application software and the source code are available from [https://trac.nbic.nl/db-iga/downloads here].
    3219
    3320== Other NBIC software projects ==