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brettc
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partitionfinder
PartitionFinder discovers optimal partitioning schemes for DNA sequences.
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building phyml from source
#39
biologyguy
closed
9 years ago
6
Consider packaging / distribution for 2.0 (maybe using a Conda recipe)
#38
brettc
opened
9 years ago
2
add support for amino acid alignments with iterative k-means
#37
pbfrandsen
closed
9 years ago
2
Include a --seed option
#36
roblanf
closed
8 years ago
16
Cache site rates?
#35
pbfrandsen
closed
8 years ago
5
Allow for relocation of output folder
#34
brettc
opened
9 years ago
0
Check error handling in threading
#33
brettc
opened
9 years ago
0
Feature/morphology2
#32
wrightaprilm
opened
9 years ago
9
Use cython for rate estimation
#31
pbfrandsen
closed
9 years ago
22
Keep (some) phylofiles
#30
maxmaronna
closed
8 years ago
2
output methods text and suggested citations
#29
roblanf
closed
8 years ago
2
Problem with installation
#28
ghost
closed
9 years ago
1
Test morphology partitionfinder
#27
wrightaprilm
closed
8 years ago
1
clean up model list
#26
roblanf
closed
8 years ago
1
Add support for sequential analyses over a model list
#25
roblanf
closed
9 years ago
2
Feature request: mrBayes block generation?
#24
miltontan
closed
8 years ago
4
Add support for additional RAxML models
#23
roblanf
closed
9 years ago
5
Abandon BIC and AIC, discuss
#22
roblanf
closed
8 years ago
11
Update PhyML version
#21
roblanf
closed
8 years ago
1
Update RAxML version
#20
roblanf
closed
9 years ago
4
TIGER rates
#19
roblanf
closed
9 years ago
15
generate likelihoods for "fabricated subsets" in the kmeans algorithm
#18
pbfrandsen
closed
9 years ago
4
support latest phyml version
#17
wookietreiber
closed
9 years ago
1
fixes #15
#16
wookietreiber
closed
9 years ago
2
IOError: [Errno 2] No such file or directory: './analysis/start_tree/filtered_source.phy_phyml_tree.txt'
#15
wookietreiber
closed
9 years ago
4
re-instate .cfg tests
#14
roblanf
closed
9 years ago
1
Order of clustering steps can differ on different machines, even in reruns
#13
cmayer
opened
10 years ago
1
Add subset info to output
#12
roblanf
closed
9 years ago
1
Catch segmentation faults from RAxML / PhyML
#11
roblanf
opened
10 years ago
0
More advice on RAxML versions
#10
roblanf
closed
8 years ago
1
Big greedy runs fail at ~50%
#9
roblanf
closed
10 years ago
2
GSOC changes by Paul
#8
brettc
closed
11 years ago
0
heuristic searches with 1 subset
#7
roblanf
closed
8 years ago
1
very small datablocks with RAxML
#6
roblanf
opened
11 years ago
0
Memory usage
#5
roblanf
closed
11 years ago
0
long file names
#4
roblanf
closed
12 years ago
8
Alignment parsing
#3
roblanf
closed
13 years ago
7
models
#2
roblanf
closed
13 years ago
2
semi colons
#1
roblanf
closed
13 years ago
4
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