SPR Supertrees example datasets - Revision history

Whidden at 13:23, 9 July 2012

2012-07-09T13:23:56Z

Whidden: /* 244 Taxa Bacterial Supertree */

2012-07-09T13:20:08Z

244 Taxa Bacterial Supertree

Whidden: /* 244 Taxa Bacterial Supertree */

2012-07-09T13:12:42Z

244 Taxa Bacterial Supertree

Whidden: New page: NOTOC == 244 Taxa Bacterial Supertree == A recent presentation at iEvoBio 2012 demonstrated a 244-taxa bacterial SPR Supertree constructed from a subset of the data from the 159,905 ...

2012-07-09T13:04:22Z

New page: __NOTOC__ == 244 Taxa Bacterial Supertree == A recent presentation at iEvoBio 2012 demonstrated a 244-taxa bacterial SPR Supertree constructed from a subset of the data from the 159,905 ...

New page

__NOTOC__

== 244 Taxa Bacterial Supertree ==

A recent presentation at iEvoBio 2012 demonstrated a 244-taxa bacterial SPR Supertree constructed from a subset of the data from the 159,905 prokaryotic phylogenetic trees from “Telling the Whole Story in a 10,000-Genome World” (PMID:21714939). The full trees are available at Dryad (doi:10.5061/dryad.gf39c8dc). To reconstruct this subset from the full dataset, you can use the -include_only option of spr_supertree with [[media:244_taxa_chosen|this text file of the chosen taxa]] and the parameters -allow_multi -support 0.8 -simple_unrooted. With the -valid_trees option, this will print out the trees and quit.

The constructed tree is available in [[media:244_taxa_supertree|newick]] and [[media:244_taxa_supertree_colored|colored nexml]] formats.

@@ Line 4: / Line 4: @@
 [[Image:244_taxa_supertree.png|thumb|457x540px]]
-A recent presentation at iEvoBio 2012 demonstrated a 244-taxa bacterial SPR Supertree constructed from a subset of the data from the 159,905 prokaryotic phylogenetic trees from “Telling the Whole Story in a 10,000-Genome World” (PMID:21714939). The full trees are available at Dryad (doi:10.5061/dryad.gf39c8dc). To reconstruct this subset from the full dataset, you can use the -include_only option of spr_supertree with [[media:244_taxa_chosen|this text file of the chosen taxa]] and the parameters -allow_multi -support 0.8 -simple_unrooted. With the -valid_trees option, this will print out the trees and quit.
+A recent presentation at iEvoBio 2012 demonstrated a 244-taxa bacterial SPR Supertree constructed from a subset of the data from the 159,905 prokaryotic phylogenetic trees from “Telling the Whole Story in a 10,000-Genome World” ([http://www.ncbi.nlm.nih.gov/pubmed/21714939 PMID:21714939]). The full trees are available at Dryad ([http://dx.doi.org/10.5061/dryad.gf39c8dc doi:10.5061/dryad.gf39c8dc]). To reconstruct this subset from the full dataset, you can use the -include_only option of spr_supertree with [[media:244_taxa_chosen|this text file of the chosen taxa]] and the parameters -allow_multi -support 0.8 -simple_unrooted. With the -valid_trees option, this will print out the trees and quit.
 The constructed tree is available in [[media:244_taxa_supertree|newick]] format.

@@ Line 3: / Line 3: @@
 == 244 Taxa Bacterial Supertree ==
-[[Image:244_taxa_supertree.png]]
+[[Image:244_taxa_supertree.png|thumb|457x540px]]
 A recent presentation at iEvoBio 2012 demonstrated a 244-taxa bacterial SPR Supertree constructed from a subset of the data from the 159,905 prokaryotic phylogenetic trees from “Telling the Whole Story in a 10,000-Genome World” (PMID:21714939). The full trees are available at Dryad (doi:10.5061/dryad.gf39c8dc). To reconstruct this subset from the full dataset, you can use the -include_only option of spr_supertree with [[media:244_taxa_chosen|this text file of the chosen taxa]] and the parameters -allow_multi -support 0.8 -simple_unrooted. With the -valid_trees option, this will print out the trees and quit.
 The constructed tree is available in [[media:244_taxa_supertree|newick]] format.

SPR Supertrees example datasets - Revision history

Whidden at 13:23, 9 July 2012

Whidden: /* 244 Taxa Bacterial Supertree */

Whidden: /* 244 Taxa Bacterial Supertree */

Whidden: New page: __NOTOC__ == 244 Taxa Bacterial Supertree == A recent presentation at iEvoBio 2012 demonstrated a 244-taxa bacterial SPR Supertree constructed from a subset of the data from the 159,905 ...

Whidden: New page: NOTOC == 244 Taxa Bacterial Supertree == A recent presentation at iEvoBio 2012 demonstrated a 244-taxa bacterial SPR Supertree constructed from a subset of the data from the 159,905 ...