User contributions
From Biopython
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- 18:41, 10 February 2012 (hist) (diff) Google Summer of Code (2011 projects to past tense) (top)
- 18:17, 3 January 2012 (hist) (diff) Phylo cookbook (Undo revision 3679 by EricTalevich (Talk) -- code doesn't work) (top)
- 17:57, 3 January 2012 (hist) (diff) Phylo cookbook (function: make a tree hypermetric)
- 21:46, 21 November 2011 (hist) (diff) Participants (→Eric Talevich: tweaks)
- 21:34, 21 November 2011 (hist) (diff) Participants (Added myself)
- 05:13, 26 August 2011 (hist) (diff) Phylo (→Example pipeline: Fixed file names) (top)
- 05:05, 26 August 2011 (hist) (diff) Phylo (→Example pipeline: Use Muscle and PhyML in place of ClustalW, etc.)
- 04:26, 26 August 2011 (hist) (diff) Phylo (→Utilities: Moved "Exporting" to the bottom and added a link to the Phylo cookbook page)
- 04:17, 26 August 2011 (hist) (diff) Phylo (→Displaying trees: The figure was ladderized)
- 04:14, 26 August 2011 (hist) (diff) Phylo (→Example pipeline: Stub with links to PhyML (external) and PAML (here))
- 04:06, 26 August 2011 (hist) (diff) N File:Phylo-draw-apaf1.png (top)
- 04:05, 26 August 2011 (hist) (diff) Phylo (→Displaying trees: Mentioned Phylo.draw)
- 21:45, 13 June 2011 (hist) (diff) Google Summer of Code (Added the 2011 students' projects and linked to their pages)
- 22:09, 4 May 2011 (hist) (diff) Phylo cookbook (→Convert to an 'ape' tree, via Rpy2: always remember to flush() ...)
- 22:02, 4 May 2011 (hist) (diff) Phylo cookbook (→Convert to an 'ape' tree, via Rpy2: missing parens)
- 21:50, 4 May 2011 (hist) (diff) Phylo cookbook (→Exporting to other types: Added to_ape)
- 18:31, 26 March 2011 (hist) (diff) Phylo (Rephrased the intro.)
- 19:59, 18 March 2011 (hist) (diff) Google Summer of Code (Updated the intro -- OBF was accepted for 2011)
- 20:17, 7 March 2011 (hist) (diff) Google Summer of Code (→Integration with a third-party structural biology application: Removed -- Joao's work makes this less important)
- 20:14, 7 March 2011 (hist) (diff) Google Summer of Code (→PDB-Tidy: command-line tools for manipulating PDB files: Removed -- it was done last year)
- 23:00, 17 November 2010 (hist) (diff) Phylo cookbook (→Consensus methods: reminder: strict consensus)
- 22:59, 17 November 2010 (hist) (diff) Phylo cookbook (→Comparing trees: reminder: robinson-foulds for treedist)
- 19:21, 31 October 2010 (hist) (diff) Phylo cookbook (→Convenience functions: Getting the parent of a clade)
- 21:45, 10 October 2010 (hist) (diff) Phylo (→read(): example of parsing a string via StringIO)
- 21:12, 3 October 2010 (hist) (diff) Phylo cookbook (→Rooting methods: Describe root_with_outgroup)
- 16:25, 26 June 2010 (hist) (diff) Phylo cookbook (→Convert to a NumPy array or matrix: touchup)
- 16:17, 26 June 2010 (hist) (diff) Phylo cookbook (→Convert to a NumPy array or matrix: Added implementations for adjacency and distance matrix)
- 15:28, 26 June 2010 (hist) (diff) Phylo (Added links to the cookbook and PhyloXML pages in the intro)
- 15:13, 26 June 2010 (hist) (diff) Phylo cookbook (→Convenience functions: Added two functions suggested by Joel Berendzen on Bugzilla)
- 04:14, 26 June 2010 (hist) (diff) Phylo cookbook (Convenience functions: index clades by name)
- 02:39, 26 June 2010 (hist) (diff) Phylo cookbook (→Comparing trees: techniques mentioned in Inferring Phylogenies (Felsenstein 2004))
- 02:36, 26 June 2010 (hist) (diff) Phylo cookbook (→Consensus methods: Pub links for the latter two)
- 02:30, 26 June 2010 (hist) (diff) Phylo cookbook (→Consensus methods: two more method ideas)
- 16:09, 25 June 2010 (hist) (diff) Phylo (→Displaying trees: Linked to the Phylo cookbook page)
- 16:07, 25 June 2010 (hist) (diff) Phylo cookbook (Linked to the main Phylo page)
- 16:04, 25 June 2010 (hist) (diff) Phylo cookbook (Added a Graphics section)
- 16:01, 25 June 2010 (hist) (diff) Phylo cookbook (Added to the Cookbook category)
- 15:59, 25 June 2010 (hist) (diff) N Phylo cookbook (Started a cookbook page with some ideas)
- 19:36, 3 June 2010 (hist) (diff) Google Summer of Code (Joao is our GSoC student this year)
- 16:29, 31 May 2010 (hist) (diff) Active projects (→Current projects: Bump GSOC 2010 to the top; updated Phylo and Biogeography)
- 18:05, 23 May 2010 (hist) (diff) Phylo (→Example pipeline: ClustalW param is infile, not input)
- 06:17, 21 May 2010 (hist) (diff) Phylo (Moved the example pipeline here from the PhyloXML page)
- 06:15, 21 May 2010 (hist) (diff) PhyloXML (→Example pipeline: Moved this section to the main Phylo page)
- 00:45, 21 May 2010 (hist) (diff) PhyloXML (Clarified the preamble)
- 00:42, 21 May 2010 (hist) (diff) PhyloXML (→Example pipeline: use clustalw to infer the tree -- simpler than phylip)
- 00:20, 21 May 2010 (hist) (diff) Phylo (→Displaying trees: pretty_print became __str__)
- 00:17, 21 May 2010 (hist) (diff) Phylo (→Exporting to other object representations: to_adjacency_matrix was removed from utils)
- 00:12, 21 May 2010 (hist) (diff) Phylo (Available in v1.54; works in Jython)
- 15:10, 22 April 2010 (hist) (diff) PhyloXML (→About the format: Used real Phylo features to show object tree and phylogram)
- 23:47, 18 April 2010 (hist) (diff) PhyloXML (→Using PhyloXML objects: outline for detailed class descriptions)
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