52dc321590b480fbcf77250066995850 *DESCRIPTION
15fa03861b6d006f4668d60290741480 *NAMESPACE
dd2b86ad818c3210806b47ee13a67360 *R/genetics-peaks.R
128d14d6b08bca6cc5b6d743f3f2d000 *R/genetics.R
0aa5044e0fde47ba33da600bc8c96f92 *R/hypothesis-peaks.R
f971e4c88633757d1e66600a76910bc9 *R/hypothesis.R
31aa63ffa5802b173e96442d3d6f05b0 *R/maximize-peaks.R
ebabd08a9efa1b410fd128d39d8e3e25 *R/maximize.R
05ce73bab24a14ec0eded10efb9b1b8e *R/objectives-peaks.R
2f228faf5e6b132b1c9505b08c97eb26 *R/objectives.R
a16003fa5685df852dca4cc382e1881d *R/plotter.R
3bfff82d46ca349a34cdce459d1a1853 *R/reports-peaks.R
194b9a0407b3526b3e668e4a1474ed32 *R/reports.R
7d63c382eef37ef3257fd42df13b7922 *build/vignette.rds
a7911278d330805d136b3a1c0128e82b *data/DNA17-db.txt.gz
cc6789997af68c989d6905214dd826e9 *data/Identifiler-db.txt.gz
f7c6da5bf953c93249a1a2452188fa15 *data/SGMplus-db.txt.gz
3309d10573a1a2e545b1f256fae0496e *data/lgc-allele-freqs-wbp.txt.gz
546b2be5cd1a1facbce8a5fef9a15244 *data/linkage.txt.gz
8a20e5ce989bf355b198ed67bc681082 *demo/00Index
1edbf7f21959f3a4ef5f94bb5143b860 *demo/allele_report.R
3627820ddb491c85023fc9e5a78a7b21 *demo/hammer.R
29ae485892606502f4b192c9a22addff *demo/plotter.R
f009ce7f7919f919b2633167d3be6509 *demo/timings.R
ed85b76aab7ddb1066891f13f78b86e9 *inst/CITATION
795eb66b3a276bd0db4d1396b85ba5fc *inst/doc/likeLTDguide.pdf
c6267931f2d7463e886aff9a87a9b84a *inst/doc/usage.R
13b178aa990fb4f02df6675455359d2f *inst/doc/usage.Rnw
0440374ee63b753d34e79fc3b0f4869b *inst/doc/usage.pdf
b2c3483a955137785d515e228d718c5e *inst/extdata/hammer/hammer-CSP.csv
ab15fe8e372733a647a4d69c7166c3c2 *inst/extdata/hammer/hammer-reference.csv
cea6b7597cb7d8598cb8c2e89d0063d4 *inst/extdata/hammer/space-CSP.csv
5281929d13f3305dad81dfc3c530d1f1 *inst/extdata/hammer/space-reference.csv
f69ad297467f2c994f3dab6e6aab84a7 *inst/extdata/laboratory/laboratory-CSP-discrete.csv
484420cd7fa53b678419a06006b61628 *inst/extdata/laboratory/laboratory-CSP.csv
95371d638dbc86f6e9b1f8761800ffec *inst/extdata/laboratory/laboratory-reference.csv
1144975c94a3b8e1416f2bd0bc8124bf *inst/extdata/nodropin/hammer-CSP.csv
ab15fe8e372733a647a4d69c7166c3c2 *inst/extdata/nodropin/hammer-reference.csv
9b023e554f62972b8ab2e4657ad64505 *inst/extdata/nodropout/CSP.csv
0f1714e63214d232256424d56c712929 *inst/extdata/nodropout/reference.csv
b2c3483a955137785d515e228d718c5e *inst/extdata/novictim/hammer-CSP.csv
6ec287fcf3fb2127a0dcc90e101ab39b *inst/extdata/novictim/hammer-reference.csv
f9a6c5e908e419e9f68ea348b06d306d *inst/unitTests/runit_genetics.R
bb3dd787625ff57ad30193398c15424c *inst/unitTests/runit_hypothesis.R
95cc3203dd9132ec02997c731797aabe *inst/unitTests/runit_maximize.R
80b573148e3bc00c3e92feb1a18353db *inst/unitTests/runit_nodropin.R
213adc9adfe296503e7bb23d05dfd624 *inst/unitTests/runit_nodropout.R
e3d85476c4ad5c17b1159af461b1fd0b *inst/unitTests/runit_novictims.R
c2112482107e774d97957f28468413a2 *inst/unitTests/runit_objective.R
e37badb2e2dd29e48ee3236ddd693496 *inst/unitTests/runit_objectivePerLocus.R
099fbdb7fc417362145d7981b045a5af *inst/unitTests/runit_reports.R
fd47b89f10d55115d57e475c758af3a3 *man/CSP.heights.plot.Rd
7221dfe8f15280559856ed4139707a6b *man/DEoptimLoop.Rd
6795c02231640e1f836119aca7980050 *man/DNA17-db.Rd
2a31430adcef8e4d50be4f99887c9362 *man/Identifiler-db.Rd
54dd14a45873bc023cba334cda509344 *man/SGMplus-db.Rd
e8d702770d424a60bfc5c3786139e64c *man/allele.report.Rd
01fb1f52d219bc27415a158025d896b6 *man/allele.report.peaks.Rd
e479fb3cac14d19589071e849c5e5e1d *man/compatible.genotypes.Rd
847be351a728b8a30a00bb30ac0fab2b *man/create.likelihood.Rd
bdefc160fd04e843153f0e9e3c4cf0ee *man/create.likelihood.log.Rd
285ff4ab263ab8862fc1de2301d5aa3f *man/create.likelihood.vectors.Rd
98a842252ea09d1df2d0c50f886786a4 *man/create.likelihood.vectors.peaks.Rd
1774b454b6e5dd0528b404deeaf5fdcc *man/defence.hypothesis.Rd
4b2a37cc2069977e7604cc263cdf9022 *man/defence.hypothesis.peaks.Rd
1152484ae33c8b5fd032c18c053bb86f *man/determine.dropout.Rd
643837d486d03f9d60516cde2ac33314 *man/evaluate.Rd
4ba23dd0acc977f4733730192826aafc *man/evaluate.from.interim.Rd
ece6ab326baabfc8fec2e578f554bf83 *man/evaluate.from.interim.peaks.Rd
c997d08b8eca1d410ecc11767b07488f *man/evaluate.peaks.Rd
cac848c312b5cd39979586a7a9eda432 *man/get.likely.genotypes.Rd
3d7d71dd1d60f059ef58ad0b4ef6caff *man/get.likely.genotypes.peaks.Rd
1984b5b8cc8ac8784149547d118e4ed4 *man/initial.arguments.Rd
2b973e72c898b32fe605343498b8f585 *man/lgc-allele-freqs-wbp.Rd
1be2eaaf82aa97d0a5105fae8a6b4d58 *man/likeLTD.Rd
1a6bd3f60bd829ba3b397a87c75ae045 *man/linkage.Rd
bd85435eb803c8c75d15f8aa062959b5 *man/load.allele.database.Rd
c77ed97c1860fdcaaef4aaefc17cb7ef *man/locus.likes.Rd
91f9edbed48a16c28831858ccb19d25e *man/locus.likes.peaks.Rd
f27a158d6312e8c14a2a52f90a032cf7 *man/objective.functions.Rd
91045edef4fdd71148052a9f6176e22e *man/optimisation.params.Rd
46362772182ea6bf3a52e34375c001ed *man/optimisation.params.peaks.Rd
80fcb430a97e7ec4758d1c8fbacd3f6e *man/output.report.Rd
44c2fa209f9398eb77b7db4ee0cf5024 *man/output.report.peaks.Rd
0012d78a95ae09556fa436c3706c856d *man/pack.admin.input.Rd
b7103375e45a8b3dbe83fb5c884e44b3 *man/pack.admin.input.peaks.Rd
025c38fb607c635cee1fcc269cb0d56a *man/peaks.results.plot.Rd
f6a895570f74a0a92d6e3c8019c80436 *man/penalties.Rd
00a4b2688cbcacd075a91abdd5082c1d *man/plotLikelihood.2d.Rd
ac8efe66faf4d0c7825a788f6ab70bc5 *man/prosecution.hypothesis.Rd
382cc7ace4e465841b0ef3bc45ca9800 *man/prosecution.hypothesis.peaks.Rd
b1be32b3220d8517a6e35f9c18e0262f *man/read.csp.profile.Rd
eead1c5183a43e6271d7ad9cb11af02e *man/read.known.profiles.Rd
b843f10bbb31335164fa6ef19f43b5e4 *man/read.peaks.profile.Rd
f774fcc1953804cef943c2ff5d01123c *man/read.unc.profile.Rd
5ceae392210e281ffa8b8561940bf841 *man/relistArguments.Rd
a4650467354c82b45db5584900fe254b *man/relistArguments.peaks.Rd
ffc40875f3d8b6bd55fc4d1b4a35d7de *man/unitTests.likeLTD.Rd
d3c78a4af7ab4baa9929080d5fe6a069 *src/Makevars
d3c78a4af7ab4baa9929080d5fe6a069 *src/Makevars.win
8fb1f0d55ca4e388e9c8145f075d78ab *src/config.h
1ddc2c55743b91f1a7fd6cd4e34262ce *src/gammaDist.cpp
8c1035f4d3d8b87aea3a1b3f58eba818 *src/gammaDist.h
1ad1e6baeece0f25020fcc5b4965df42 *src/genetics.cpp
c3219013ea9b21cf21badf46e824077d *src/genetics.h
52ca85a506863526d5cccc68c5b0a627 *src/maximizePeaks.cpp
0709711cd714cc4804ffaedaee83ff55 *src/maximizePeaks.h
e28073c59178a4db46e5d3717e036b3c *src/module.cpp
b2c1dabfaa2aefe1a4683626d88c5e48 *src/objectives.cpp
e71321dc8875a4df9ab6daf115c1b73b *src/objectives.h
4f0417c26b80074d47af499f6fb69e17 *src/openmp.cpp
d2f09ce57bbfb480a1fe63383821c9a9 *src/openmp.h
13b178aa990fb4f02df6675455359d2f *vignettes/usage.Rnw
