Ted PakAdminTed Pak (ChromoZoom dev, chromozoom)

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      1 comment  ·  General  ·  Admin →
      Ted PakAdminTed Pak (ChromoZoom dev, chromozoom) commented  · 

      Hi wchen,

      The windowing function is only applicable to WIG or bigWig files. Let's take this one as an example: http://chromozoom.org/?db=sacCer3&customTracks=http://chromozoom.org/docs/examples/Buhler_2007_dmc1delta_denoised_ratios_V64.wig

      When zoomed far out, if you change the windowing function between min/mean/max, you'll notice the peaks shift up and down a little bit.

      The concept is, whenever ChromoZoom draws a pixel, it has to combine datapoints that fit into the pixel, and this is what the windowing function is used for--do we draw the max of the data, the min of the data, or the mean of the data in the pixel.

      Cheers
      Ted

    • 4 votes
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        2 comments  ·  General  ·  Admin →
        Ted PakAdminTed Pak (ChromoZoom dev, chromozoom) commented  · 

        Hey Matthew, we've actually been working on this feature but have kept it in beta while we work out the kinks.

        If you want to give it a test drive, check out http://beta.chromozoom.org

        You can load the other genome layouts on UCSC, an IGB custom genome directory, or a GenBank file. I might caution that not all the features work correctly yet, but would love to know your thoughts.

      • 1 vote
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          0 comments  ·  General  ·  Admin →
          Ted PakAdminTed Pak (ChromoZoom dev, chromozoom) shared this idea  · 
        • 1 vote
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            1 comment  ·  General  ·  Admin →
            Ted PakAdminTed Pak (ChromoZoom dev, chromozoom) commented  · 

            Thanks Leo! I'll take a look at that.

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