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hyphy
HyPhy: Hypothesis testing using Phylogenies
http://www.hyphy.org
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aBSREL: when to select 'Leaves' versus 'All'
#1541
Emilyaoc
closed
1 year ago
1
Ambiguous nucleotides as input for Hyphy positive selection
#1540
psorigue
closed
1 year ago
2
Can not run GARD results
#1539
VeterinaryLi
closed
1 year ago
4
Cannot install hyphy-develop / hyphy-analyses
#1538
hayleyjaywilson
closed
1 year ago
2
aBSREL output empty
#1537
psorigue
closed
1 year ago
5
how to calculate the dN/dS for a orthologus gene family ?
#1536
yayahoho1
closed
1 year ago
2
Anyway to calculate omega for each branch of the tree?
#1535
jzhan6
closed
1 year ago
6
[GARD] Recombination on a sliding windows
#1534
francicco
closed
1 year ago
5
Nodal equivalency across gene phylogenies against the backdrop of a species phylogeny?
#1533
VectorFrankenstein
closed
1 year ago
6
aBSREL run error
#1532
luisasegovia
closed
1 year ago
10
Can BGM compare the specified branches (foreground) against the Background branches as done in BUSTED?
#1531
Enhancer01
closed
1 year ago
6
dataset with mixed code tables
#1530
dongzhang0725
closed
1 year ago
17
2 tests fail
#1529
yurivict
closed
1 year ago
11
Tests fail in outsource build
#1528
yurivict
closed
1 year ago
2
BGM results showing constant sites are co-evolving
#1527
ElizabethRobbins
closed
1 year ago
2
Instant error on all jobs
#1526
eibnerg
closed
1 year ago
3
RELAX runing wrong
#1525
mumu520520
closed
1 year ago
2
Dealing with reference genome length not divisible by 3
#1524
abulenciamiguel
closed
1 year ago
3
Reviews requesting multiple hypothesis testing corrections when using BUSTED-PH and RELAX
#1523
mbarkdull
closed
1 year ago
11
How does BUSTED work?
#1522
gykoh
closed
1 year ago
2
Positive selection analysis
#1521
abulenciamiguel
closed
1 year ago
2
Errors in jobs
#1520
ddf37
closed
1 year ago
11
2.5.42rc
#1519
spond
closed
1 year ago
1
Foreground vs background in BUSTED
#1518
katherine-li07
closed
1 year ago
7
Questions About BUSTED
#1517
gykoh
closed
1 year ago
2
Errors for all new jobs today
#1516
davidgafl
closed
1 year ago
4
Jobs i Queue
#1515
Leki-10
closed
1 year ago
3
RELAX exiting with "Internal error in _LikelihoodFunction::ConjugateGradientDescent."
#1514
awalling
closed
1 year ago
2
Export table FEL
#1513
andreaniml
closed
1 year ago
3
EBF table in MEME
#1512
khoojj
closed
1 year ago
5
The selection seem to be intensified near the root but relaxed far away from the root in my time tree of H1N1(pdm2009)
#1511
biozhajie
closed
1 year ago
1
site-level selection for highly divergent sequences
#1510
skyungyong
closed
1 year ago
2
pre-msa.bf
#1509
khoojj
closed
2 years ago
1
Two questions about selection analysis
#1508
biozhajie
closed
2 years ago
2
selection density with RELAX
#1507
XiaoliChenSD
closed
1 year ago
7
Can not find P-value in FUBAR results on website (http://www.datamonkey.org/)
#1506
YuantingGuo
closed
2 years ago
2
Selecting branches command line
#1505
ayssel-uct
closed
1 year ago
2
v 2.5.41
#1504
spond
closed
2 years ago
0
Fails when OpenMP isn't enabled
#1503
yurivict
closed
2 years ago
3
Re-estimating Branch Lengths in HyPhy and using a BS-REL Model
#1502
amholtz
closed
2 years ago
5
Initialization phase does not getting over
#1501
Monikasharma1494
closed
2 years ago
2
Can't seem to get over initialization phase for Analysis
#1500
Leki-10
closed
2 years ago
4
busted-mh using single and multiple species as foreground
#1499
MariangelaIannello
closed
2 years ago
2
How to fix the topology and branch lengthes of my input tree when estimating other parameters using RELAX
#1498
biozhajie
closed
1 year ago
5
How to use the k values in the table of Branch attributes at the bottom of the json output file
#1497
biozhajie
closed
2 years ago
4
what is difference between selecting one ancestral branch and selecting ancestral branch and all descendent branches
#1496
jzhan6
closed
2 years ago
4
Would you mind show me how to assign each k value to each branch of a tree
#1495
biozhajie
closed
2 years ago
0
How to assign each k value outputed by general descriptive model in RELAX program, to each branch of a tree
#1494
biozhajie
closed
2 years ago
0
Develop
#1493
spond
closed
2 years ago
2
What can be the most reliable parameters for running GARD method for our sample?
#1492
Clementine0702
closed
2 years ago
4
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