1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
|
..:: Data files ::..
Data/
LSU.phy Sequence file in phylip format.
LSU.dnd Unrooted tree in newick format.
LSUrooted.dnd Rooted tree in newick format.
tree.dnd A candidate tree.
treeList.dnd A list of trees in newick format.
treeList2.dnd Another list of trees in newick format.
OutGroup.txt A list of taxons to be used with BppReRoot.
lysozymeLarge.fasta and .dnd Files from the PAML package.
Myo.mase Myoglobin sequence alignment, From dutheil and Galtier 2007
HIV1_REF_2010_gag_DNA.fasta Alignment file downloaded from the HIV database on 21/12/11
" " _macse realigned with Macse 0.8
..:: Options files ::..
These option files are split in their respective program directory:
Dist.bpp BppDist option file.
Pars.bpp BppPars option file.
ML.bpp BppML option file. Homogeneous model.
MLNHGG.bpp BppML option file. Galtier & Gouy non-homogeneous model, like in the MHNL package.
MLNH.bpp BppML option file. Gemeral non-homogeneous models.
SeqGen.bpp BppSeqGen option file.
SeqGenHomogeneousModel.bpp File included by SeqGen.bpp. Not to be used directly.
SeqGenNonHomogeneousModel.bpp File included by SeqGen.bpp. Not to be used directly.
Consense.bpp BppConsense option file.
SeqMan.bpp BppSeqMan option file.
ReRoot.bpp BppReRoot option file.
AlnScores.bpp BppAlnscore option file.
|
