Difference between revisions of "Web based genome 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
  - http://www.fantascienza.net/leonardo/so/dotplot/dotplot.html
  - >>> import Bio.Align.Applications >>> dir(Bio.Align.Applications)
Multi MEDIA
- Multigenome comparison tool

@@ Line 11: / Line 11: @@
 **Need to calculate alignments
 ***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]
 **Multigenome comparison tool