issues
search
xflouris
/
libpll
Phylogenetic Likelihood Library
GNU Affero General Public License v3.0
26
stars
6
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Parse utree or rtree from a string
#100
xflouris
closed
7 years ago
1
Explicit parsing error messages and context
#99
stamatak
closed
6 years ago
0
Add node_id field to pll_utree_t/pll_rtree_t
#98
amkozlov
closed
7 years ago
2
Do not write Bison/flex errors to the console
#97
amkozlov
closed
7 years ago
3
Add set_error() function
#96
amkozlov
closed
6 years ago
6
Alignment pattern compression fails for AA data
#95
amkozlov
closed
8 years ago
1
Anonymous union errors when including the new NNI/SPR rollback structures in C++ code
#94
cwhidden
closed
8 years ago
2
Terrace aware moves
#93
stamatak
opened
8 years ago
3
flexible CLV allocation/dealloaction functions
#92
stamatak
closed
6 years ago
0
SSE3 vectorization
#91
stamatak
closed
7 years ago
1
Removing trailing whitespace in examples and src.
#90
matsen
closed
8 years ago
0
Replacing hdr reference with correct headers[i] in examples.
#89
matsen
closed
8 years ago
2
Significant figures in tree output
#88
matsen
closed
6 years ago
1
Minor tidying and typo fixes.
#87
matsen
closed
8 years ago
1
Documentation tasks (0.1.0) - Tomas
#86
xflouris
opened
8 years ago
0
Documentation tasks (0.1.0) - Diego
#85
xflouris
opened
8 years ago
0
Bug with states <> 4 when using tip pattern with AVX and scaling is required
#84
xflouris
closed
8 years ago
1
Bug with states <> 4 and invariant sites
#83
xflouris
closed
8 years ago
1
Bug with PATTERN_TIP and odd number of rate categories
#82
ddarriba
closed
8 years ago
3
Implement the Hessian matrix according to PAML
#81
xflouris
opened
8 years ago
0
Implement and benchmark per-category scalers
#80
amkozlov
closed
7 years ago
1
Implement ascertainment bias correction
#79
stamatak
closed
8 years ago
1
Site pattern compression should work with states, not with characters
#78
amkozlov
closed
8 years ago
7
[fix_dev] update examples
#77
xflouris
closed
8 years ago
1
[fix_dev] Create tip-inner case for rooted tree functions to account for site patterns
#76
xflouris
closed
8 years ago
1
[fix_dev] Fix persite functions
#75
xflouris
closed
8 years ago
8
[fix_dev] Update testinf framework
#74
xflouris
closed
8 years ago
1
[fix_dev] Fix sumtable and derivatives functions
#73
xflouris
closed
8 years ago
1
NEWICK parser: breaks if taxa names contain special chars or start with a digit
#72
amkozlov
closed
8 years ago
4
FASTA parser: problem with DOS lile endings
#71
amkozlov
closed
8 years ago
1
test odd states with model optimization in exp branch
#70
xflouris
closed
8 years ago
1
IBM Blue Gene adaptation
#69
stamatak
closed
6 years ago
1
Site compression function
#68
xflouris
closed
8 years ago
1
Add simple PHYLIP parser
#67
xflouris
closed
8 years ago
7
Function to persist pll_partition to / create from a binary file
#66
pierrebarbera
closed
8 years ago
0
Restricting partitions to a subset of sites
#65
pierrebarbera
closed
6 years ago
0
compute_empirical_frequencies return garbage when compiling libpll_optimize with -DNDEBUG
#64
pierrebarbera
closed
8 years ago
1
AVX vectorization of likelihood functions
#63
pierrebarbera
closed
7 years ago
1
AVX vectorization of tip-tip and tip-inner cases
#62
xflouris
closed
8 years ago
1
AVX vectorization of likelihood derivatives
#61
ddarriba
closed
6 years ago
10
Add PATTERN_TIP-compliant core functions
#60
pierrebarbera
closed
8 years ago
3
Add include guards in pll.h
#59
amkozlov
closed
7 years ago
1
Extend parser to read mixed alignments (concatenations of AA, DNA, binary etc data)
#58
stamatak
closed
8 years ago
1
thread-safe error messages
#57
xflouris
closed
8 years ago
1
check if EIGN library might be useful
#56
stamatak
closed
8 years ago
0
pll_compare_likelihood_derivatives
#55
xflouris
closed
8 years ago
0
tbr example
#54
xflouris
closed
8 years ago
1
model-optimize example
#53
xflouris
closed
8 years ago
1
testing framework
#52
xflouris
closed
8 years ago
8
Fix and document lg4x example
#51
xflouris
closed
8 years ago
1
Previous
Next