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Analyzed 20 days ago. based on code collected 21 days ago.

Commit Message	Contributor	Files Modified	Lines Added	Lines Removed	Code Location	Date
Jan 29, 2024 — Jan 29, 2025 Showing page 12 of 14 Search / Filter on:
updated project file	Rutger Vos	More...				almost 13 years ago
modified to process phyml files, which need their basal trichotomy resolved	Rutger Vos	More...				almost 13 years ago
produced by make_consensus.pl, resulted in 4 polytomies	Rutger Vos	More...				almost 13 years ago
adding pauprat script and output files	Rutger Vos	More...				almost 13 years ago
MRP matrix based on the sourcetrees Tr***.xml files and the NCBI backbone	Rutger Vos	More...				almost 13 years ago
this script computes the consensus over all distinct equally parsimonious supertrees, randomly resolves polytomies	Rutger Vos	More...				almost 13 years ago
this script concatenates *.dat files into a nexus matrix	Rutger Vos	More...				almost 13 years ago
these trees were produced with phyml from the phylip files, then taxonomically enhanced, SDI'd and SDI-rooted using archeopteryx	Rutger Vos	More...				almost 13 years ago
adding phyml output files	Rutger Vos	More...				almost 13 years ago
Adding autoload logic for all-caps and unknown methods.	Rutger Vos	More...				almost 13 years ago
adding fasta to phylip converter	Rutger Vos	More...				almost 13 years ago
adding conversion to phylip files of fasta files	Rutger Vos	More...				almost 13 years ago
adding scripts to convert ncbi newick and treebase nexml to mrp matrices	Rutger Vos	More...				almost 13 years ago
Now checks to see if column has a value, to prevent uninitialized warnings	Rutger Vos	More...				almost 13 years ago
adding source MRP matrices	Rutger Vos	More...				almost 13 years ago
pretty printed	Rutger Vos	More...				almost 13 years ago
adding source trees	Rutger Vos	More...				almost 13 years ago
More reporting back to user, also no longer downloads same file multiple times.	Rutger Vos	More...				almost 13 years ago
adding script to fetch source trees from treebase	Rutger Vos	More...				almost 13 years ago
this script queries ubio phylows to fetch more metadata for given taxa. currently not used	Rutger Vos	More...				almost 13 years ago
adding taxamap class	Rutger Vos	More...				almost 13 years ago
Merge branch 'master' of github.com:rvosa/cobra	Rutger Vos	More...				almost 13 years ago
although the species codes are now valid, this tree needs to be bifurcating	Rutger Vos	More...				almost 13 years ago
Now uses taxa.csv to get species codes, instead of re-computing them. Also added comments.	Rutger Vos	More...				almost 13 years ago
Removing the chop that was a workaround for non-platform line breaks. The csv file simply needs to have the right breaks.	Rutger Vos	More...				almost 13 years ago
now obtains its phyloxml-compliant species codes from taxa.csv instead of re-computing them from scientific names	Rutger Vos	More...				almost 13 years ago
the nexml and phyloxml files now have species codes based on taxa.csv	Rutger Vos	More...				almost 13 years ago
Generated phyloxml-compliant taxon codes.	Rutger Vos	More...				almost 13 years ago
Removing (Silurana) from Xenopus tropicalis: we want binomials for all tips	Rutger Vos	More...				almost 13 years ago
adding script to convert a newick tree into a phyloxml tree with species code, and the output that is produced when this script is run on phyliptree.phy	Rutger Vos	More...				almost 13 years ago

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