StatSVN - Directory src/dr/app/seqgen/

Lines of Code

src/dr/app/seqgen/ Lines of Code

Developers

Author	Changes	Lines of Code	Lines per Change
Totals	32 (100.0%)	1486 (100.0%)	46.4
rambaut	9 (28.1%)	794 (53.4%)	88.2
higgs.ml	1 (3.1%)	256 (17.2%)	256.0
akaruiws	10 (31.3%)	242 (16.3%)	24.2
fbielejec	4 (12.5%)	101 (6.8%)	25.2
alexei.drummond	2 (6.3%)	48 (3.2%)	24.0
dong.w.xie@gmail.com	2 (6.3%)	26 (1.7%)	13.0
msuchard	3 (9.4%)	14 (0.9%)	4.6
jheled	1 (3.1%)	5 (0.3%)	5.0

Most Recent Commits

dong.w.xie@gmail.com 2013-03-28 11:48 Rev.: 5551

more improvement of SeqGen

26 lines of code changed in 2 files:

src/dr/app/seqgen: SeqGen.java (+26 -15)

alexei.drummond 2013-03-28 11:02 Rev.: 5550

Rearranging code in SeqGen to speed it up a bit for very large trees (100,000 tips)

5 lines of code changed in 1 file:

src/dr/app/seqgen: SeqGen.java (+5 -3)

fbielejec 2012-03-05 00:51 Rev.: 4762

commiting everything

3 lines of code changed in 2 files:

src/dr/app/seqgen: SequenceSimulator.java (+3 -2)

fbielejec 2012-03-03 00:11

Sequence simulator accepts ancestral sequence now

98 lines of code changed in 2 files:

src/dr/app/seqgen: SequenceSimulator.java (+98 -30)

alexei.drummond 2011-03-09 10:25 Rev.: 3861

seqgen generalization prep

43 lines of code changed in 1 file:

src/dr/app/seqgen: SeqGen.java (+43 -32)

akaruiws 2010-11-10 18:01 Rev.: 3702

add new constructor.

18 lines of code changed in 2 files:

src/dr/app/seqgen: MicrosatelliteSimulator.java (new)

akaruiws 2010-09-23 20:13

Simulator for geographic locations by homogeneous diffusion.

121 lines of code changed in 3 files:

src/dr/app/seqgen: GeoDiffusionSimulator.java (+112)

rambaut 2010-08-01 11:18 Rev.: 3356

A _very_ situation specific simulator for a project.

1 lines of code changed in 2 files:

src/dr/app/seqgen: RecomboGen.java (+1 -1)

rambaut 2010-07-30 19:04 Rev.: 3354

A _very_ situation specific simulator for a project.

508 lines of code changed in 3 files:

src/dr/app/seqgen: RecomboGen.java (+408), SeqGen.java (+86 -74), SequenceSimulator.java (+14 -15)

akaruiws 2010-06-11 12:47 Rev.: 3248

Msat model averaging.

2 lines of code changed in 1 file:

src/dr/app/seqgen: MicrosatelliteSimulator.java (+2 -4)

akaruiws 2010-06-06 22:12 Rev.: 3233

Misc changes to classes for msat likelihood calculation.

3 lines of code changed in 1 file:

src/dr/app/seqgen: MicrosatelliteSimulator.java (+3 -1)

msuchard 2010-04-28 12:52 Rev.: 3141

Fixed bug when simulating sequences under general data type

3 lines of code changed in 1 file:

src/dr/app/seqgen: SequenceSimulator.java (+3 -3)

akaruiws 2009-10-02 11:32 Rev.: 2336

Changed DataType to Microsatellite.

3 lines of code changed in 1 file:

src/dr/app/seqgen: MicrosatelliteSimulator.java (+3 -3)

akaruiws 2009-10-02 11:12 Rev.: 2334

Implementatin of MicrosatelliteSimulator.

60 lines of code changed in 1 file:

src/dr/app/seqgen: MicrosatelliteSimulator.java (+60)

akaruiws 2009-10-02 11:05 Rev.: 2333

Changed the scope of some instance variables from provite to protected to allow them be accessed by a derived class.

35 lines of code changed in 1 file:

src/dr/app/seqgen: SequenceSimulator.java (+35 -35)

jheled 2009-05-06 09:55 Rev.: 1674

more string constants

5 lines of code changed in 1 file:

src/dr/app/seqgen: SequenceSimulator.java (+5 -12)

msuchard 2009-03-01 21:09 Rev.: 1464

Hack in SequenceSimulator to allow epoch substitution models; to be removed when TreeBranchSiteModel issue resolved

8 lines of code changed in 1 file:

src/dr/app/seqgen: SequenceSimulator.java (+8)

msuchard 2009-02-25 13:52 Rev.: 1457

Alignment returned from SequenceSimulator now takes its DataType from the FrequenceModel used to construct it

3 lines of code changed in 1 file:

src/dr/app/seqgen: SequenceSimulator.java (+3)

higgs.ml 2009-02-25 11:20 Rev.: 1455

initial version

256 lines of code changed in 1 file:

src/dr/app/seqgen: SequenceSimulator.java (+256)

rambaut 2008-09-27 03:02 Rev.: 1192

Cleaning up

3 lines of code changed in 1 file:

src/dr/app/seqgen: SeqGen.java (+3 -3)

rambaut 2008-09-03 09:15 Rev.: 1175

bits and bobs

1 lines of code changed in 1 file:

src/dr/app/seqgen: SeqGen.java (+1 -1)

rambaut 2008-08-30 20:49 Rev.: 1172

Some additions to the sequence simulator

66 lines of code changed in 1 file:

src/dr/app/seqgen: SeqGen.java (+66 -19)

rambaut 2008-08-29 06:06 Rev.: 1170

Started work on a sequence simulator

215 lines of code changed in 1 file:

src/dr/app/seqgen: SeqGen.java (+215)