http://freelancingscience.com/2008/01/20/tracking-changes-in-the-multiple-sequence-alignment/ visualization, protein science, open science and freelancing science Wed, 10 Mar 2010 14:20:15 +0000 http://wordpress.com/ hourly 1 http://freelancingscience.com/2008/01/20/tracking-changes-in-the-multiple-sequence-alignment/#comment-276 freesci Thu, 24 Jan 2008 08:30:11 +0000 http://freesci.wordpress.com/2008/01/20/tracking-changes-in-the-multiple-sequence-alignment/#comment-276 Thanks Allen. As far as I know Weblogo is being constantly improved, so it's safe to assume that I used completely different version that you did. Preparing PNG file for alignment of 500 sequences takes around 1sec with Weblogo, so it's not much. For window of 15 sequences it is almost instant. In my script it takes much more time to combine individual images with ImageMagick, than to prepare them. So in this sense, it's not real-time - creation of this short video took around 15 minutes, but Weblogo was the least demanding software element. Thanks Allen. As far as I know Weblogo is being constantly improved, so it’s safe to assume that I used completely different version that you did. Preparing PNG file for alignment of 500 sequences takes around 1sec with Weblogo, so it’s not much. For window of 15 sequences it is almost instant. In my script it takes much more time to combine individual images with ImageMagick, than to prepare them. So in this sense, it’s not real-time – creation of this short video took around 15 minutes, but Weblogo was the least demanding software element.

]]> http://freelancingscience.com/2008/01/20/tracking-changes-in-the-multiple-sequence-alignment/#comment-274 Allen Liu Wed, 23 Jan 2008 23:06:31 +0000 http://freesci.wordpress.com/2008/01/20/tracking-changes-in-the-multiple-sequence-alignment/#comment-274 This is a very COOL script you have going. I used worked on a project on elucidating the Dicty kinome a while back and I remember utilizing the Weblogo tool. Although it had a couple of issues back then, I'm sure it has improved a lot. If you are processing in real-time, then it also seems to be heck of a lot faster as well. This is a very COOL script you have going. I used worked on a project on elucidating the Dicty kinome a while back and I remember utilizing the Weblogo tool. Although it had a couple of issues back then, I’m sure it has improved a lot. If you are processing in real-time, then it also seems to be heck of a lot faster as well.

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