Difference between revisions of "Web based genome comparison tool"

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**Need to calculate alignments
 
**Need to calculate alignments
 
***http://www.fantascienza.net/leonardo/so/dotplot/dotplot.html
 
***http://www.fantascienza.net/leonardo/so/dotplot/dotplot.html
***>>> import Bio.Align.Applications
+
***>>> import Bio.Align.Applications >>> dir(Bio.Align.Applications)
>>> dir(Bio.Align.Applications)
 
 
*[http://www.broadinstitute.org/annotation/medea/stackmap/ Multi MEDIA]
 
*[http://www.broadinstitute.org/annotation/medea/stackmap/ Multi MEDIA]
 
**Multigenome comparison tool
 
**Multigenome comparison tool

Revision as of 19:23, 20 September 2011

  • JDotter
    • A java based tool designed to compare whole genome
    • Runs comparison operations locally
    • Need a java install thing
  • M-GCAT
    • in C and Python
    • Runs locally from command line??? => could generate on server. Too much work for server?
  • Dotplot MEDEA
    • This is what I want!
    • At its minimum, the MEDEA Dot Plot only needs JSON formatted data for the sequences and JSON formatted data for alignments.
    • Need to calculate alignments
  • Multi MEDIA
    • Multigenome comparison tool