Pas-Kapli mptp issues - Githubissues

Pas-Kapli / mptp

mPTP - a tool for single-locus species delimitation

GNU Affero General Public License v3.0

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issues

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Implement --outgroup correctly.

#38 xflouris closed 9 years ago
2
Output SVG with ML delimitation in bayesian runs

#37 xflouris closed 9 years ago
2
Ignore subtrees consisting of very short branch lengths in bayesian proposals

#36 Pas-Kapli closed 9 years ago
4
Add option to start bayesian search from a random delimitation.

#35 xflouris closed 9 years ago
3
Export support values in the generated SVG

#34 xflouris closed 8 years ago
0
Export support values into extended newick as attributes.

#33 xflouris closed 9 years ago
5
Add support values to nodes after bayesian runs

#32 xflouris closed 9 years ago
2
Double-check Bayesian implementation for correctness

#31 xflouris closed 9 years ago
2
Create manual pages

#30 xflouris closed 8 years ago
2
LRT test between PTP-single and PTP-multi delimitaions

#29 Pas-Kapli closed 9 years ago
2
remove outgroup

#28 Pas-Kapli closed 9 years ago
1
fix output

#27 Pas-Kapli closed 9 years ago
1
update parser to accept a wider range of characters for taxa name

#26 xflouris closed 9 years ago
1
Clear output on console

#25 xflouris closed 9 years ago
1
Output species delimitation in file

#24 xflouris closed 9 years ago
1
Implement knapsack method

#23 xflouris closed 9 years ago
1
Incorporate priors in likelihood function

#22 xflouris closed 9 years ago
1
Implement hyperpriors for the bayesian version

#21 xflouris closed 9 years ago
1
Adapt bayesian implementation to use a prior on the number of species

#20 xflouris closed 9 years ago
1
Implement basic bayesian method

#19 xflouris closed 9 years ago
1
Implement a template for testing framework

#18 xflouris opened 9 years ago
0
Remove all clang warnings

#17 xflouris closed 9 years ago
1
Refactor code

#16 xflouris closed 9 years ago
1
Fix computation of likelihood score

#15 lutteropp closed 9 years ago
0
Compute score of the "real" delimitation

#14 lutteropp closed 9 years ago
0
Copy chi2 code from GSL to remove dependencies

#13 xflouris closed 9 years ago
11
Create a wiki page with documentation

#12 xflouris opened 9 years ago
1
Fix memory leaks in ptp_multi.c

#11 xflouris closed 9 years ago
1
Implement multiple outgroup input

#10 xflouris closed 9 years ago
1
Remove parser error mesage when tree is not rooted

#9 xflouris closed 9 years ago
1
Accept numbers as taxon names in newick parser

#8 xflouris closed 9 years ago
1
Convert unrooted trees to rooted by selecting the taxon with the longest branch as outgroup

#7 xflouris closed 9 years ago
1
Implement original PTP

#6 xflouris closed 9 years ago
1
Implement null model check

#5 xflouris closed 9 years ago
0
Implement Sarah's PTP single-rate heuristic

#4 xflouris closed 9 years ago
0
Implement Sarah's PTP multi-rate heuristic

#3 xflouris closed 9 years ago
0
Read unrooted trees and convert them to rooted given an outgroup

#2 xflouris closed 9 years ago
1
Add parser for unrooted trees

#1 xflouris closed 9 years ago
1