f20e77ee43e8ac98b4cde5ad95212624 *DESCRIPTION
3e68759db3d5875e1d9179f1835093fc *NAMESPACE
04b2bb8bd36afbe38854cfebf2e51903 *NEWS.md
ab4744ab930fd592f1f770c35aa38c2b *R/DataSimulation.R
a0c28d847bc08a7ccee2b250b05e7030 *R/EnvironmentalFit.R
a1ce111287b6eced41003d65f48d8f41 *R/EvaluationCriteria.R
f677b25fa7bd53ae01d80da8990988ba *R/IBDModels.R
a1f1f932977a28e999ff9c41f96f3761 *R/IrregularSamplingTimes.R
78c986993286bc903e7594361ee70ccb *R/NullModel.R
81e725f1c56537444d4fac89b7183a36 *R/RatesToProbabilities.R
fdd9ac7850d94fd5ef2ac98ebf58af24 *R/RegularSamplingTimes.R
5aa2b8ee8af77c5427fa0ff687a6fbe7 *R/alonso15.R
dc112d9f0755e87c9f3df24741ed667f *R/da_MacKenzie_mle.R
2bc3a2cfe58718ea60a56657c8d93ace *R/da_mle_cedp.R
0c9b46d19e8f6d3104f9cc2a8e2d4435 *R/da_upgma_AIC_cedp.R
1719ef01dd491612def92290c81a544a *R/idaho.R
16127849735373f9661191a10e0711c9 *R/island.R
849bd86918912bb422c245d5169bcef8 *R/lakshadweep.R
ad34e7b0b751a6ccd0ac565bb488039f *R/lakshadweepPLUS.R
0030f7ea71cea0aaeb4df74fe920d41b *R/simberloff.R
8faf250d78a120ba4c7ea2186efddd24 *build/partial.rdb
f9862f9766c81037aa225e2ecdf6f509 *build/vignette.rds
8b729c72322c972f605903b8e6a93e63 *cleanup
0ffbafabd44407536a9ef22eb953a605 *configure
39fc01c0fae730d7847aa93d7f471380 *configure.ac
1cd1e6c50f8e6201c7bf0f92f6b3c334 *data/alonso15.RData
f8f8802df20456e3f7d619158d99d9a2 *data/idaho.RData
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b7536239b307cf03916bd6b43e343c92 *data/lakshadweepPLUS.RData
f27212073f7ffb6c558ad44c4c4a1edb *data/simberloff.RData
d6f686fa5063ef7b9adb49563c8beeaa *inst/CITATION
d78a874ca43935b11352ccc074a0a2ba *inst/doc/IBDmodels.R
41110422abee67fa1c190e09159b0b50 *inst/doc/IBDmodels.Rmd
9515a5c5c32cffaa31e74b5513ac916c *inst/doc/IBDmodels.html
751c63cbb034bd95df57212b96f4e022 *inst/doc/detectability.R
17c56e8ee2be559025f168bf2e7a9af9 *inst/doc/detectability.Rmd
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cd1d250c247efbbd69b8336e91862d0e *man/akaikeic.Rd
eeea0df4770da0126729ff4668c59712 *man/all_environmental_fit.Rd
a3a5be35e91ec6f944d3209f191d1127 *man/alonso15.Rd
7438aae714374110ee98a05bf703e2b8 *man/cetotrans.Rd
19a1e1387e2ff57f99175f1a8499e6da *man/data_generation.Rd
af71bf7afd3123afb1e02c445ce13f0d *man/ibd_models.Rd
375d9a37ff6a54efe35c6aabd9d40a19 *man/idaho.Rd
8fc3de82b930848f5038f6a028331dcb *man/irregular_multiple_datasets.Rd
e798d6efbeca260fbeabb66d12820dfc *man/irregular_single_dataset.Rd
d35c421e4ce766690b9402bc08e803ab *man/island.Rd
69a5a1f0c9eba6f44458148ae15dcac2 *man/lakshadweep.Rd
b929b30ed14998014e03bac11bc1680e *man/lakshadweepPLUS.Rd
8bd8d9dc8205d60f5244aef19ab1a3fa *man/mss_cedp.Rd
af18f175698122176b031b31dd10ed3e *man/r_squared.Rd
6e6eb92337aaa0fe51701155bf18ae25 *man/rates_calculator.Rd
1c522987da9f343baef9a2c234497433 *man/regular_sampling_scheme.Rd
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3bb2814c33846231db310f238aabcb04 *man/sss_cedp.Rd
8b4819ca603a913d09a24f26daba9ea6 *man/upgma_model_selection.Rd
d71e7bb2dfa69963aee9552d78a554c5 *man/weight_of_evidence.Rd
ea6dd72264f45e57ed7f62026de31c42 *src/Checking_for_Parameter_Correctness.c
f6b9704bcec0faca5bca3aaf8f78786e *src/Counting_Replicates_per_Time.c
443898e2e5876a108ad08b5f75ee2b8a *src/Counting_Type_of_Transitions.c
2e1fdb2f95551e583c2bcdba6dddb793 *src/Create_Binary_Combination.c
97a7e80aab77a396c89ef4d3648ceb72 *src/EUCLIDIAN_DISTANCE_MATRIX.c
df921ca02331be65699a080102ecf1b5 *src/GSL_MacKenzie_NLL_Uneven_Function.c
ec911d25c1f558d1924c03d02c96b9fc *src/GSL_MacKenzie_NLLikelihood_Function.c
5130965f6176d75033e5840831d3ddf3 *src/GSL_Minimization_Simplex.c
60d681324890c52b9f6d3ab7a0fa18ed *src/GSL_NLL_Function_Uneven.c
641b61f2b261859aba573b6db9529791 *src/GSL_NLLikelihood_Function.c
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56d67d769028d1a8ccd1edd41283d318 *src/IO_AKAIKE_Model_Selection.c
508a3f92be5aac7ceb73f9952f4eb83d *src/IO_AKAIKE_Model_Selection.h
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1a18ca886b011b7a439eb05a1ec05264 *src/IO_Missing_Values.h
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5fb47314d562e8c70bb97fe7f6b20311 *src/MODEL_Parameter_Fitting_STRUCT_DEF.h
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761e3b0d4e6701b3abe7ae2b0965adc2 *src/MODEL_Parameter_Space_STRUCT_DEF.h
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59b96a762822acb6d9390c34ec076f82 *src/MODEL_SELECTION_UPGMA_R_FUNCTION.c
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ca37a76dafc1bf0121568dd3a2833ddf *src/MODEL_Time_Control_STRUCT_DEF.h
03fc9b20832d32f4403188c40a7cab27 *src/MacKenzie_NLLikelihood_Function.c
d0bba72bbb73fa35399eaa0a0fed44af *src/Makevars.in
0211568d3b13e190d057717fa5b15982 *src/Makevars.win
0f8efae2707e0c9ccbe01c6c2e3d8526 *src/Parameter_Model.c
f1d77db0a8a879f876312a79c9e722c3 *src/Parameter_Space_R_SHLIB.c
a513f40149c0e5c8a95352d98a8de58b *src/Probability_Rates.c
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8cf8dee05bb46122dc77fbc22eb60584 *src/R_SHLIB___mle_MacKenzie_NLLikelihood_Minimization.c
80c849ad887ed5860d1227fe698a2a2d *src/R_SHLIB___mle_NLL_Uneven_Minimization.c
4c400a03731cb5492f7499cf66ded05c *src/Rates_into_Probabilities.c
6012e4fb88ac0bc2f5ec5b8bc295d062 *src/SP_Matrix_Data.c
62b43af4097038d5ef50fd6e4aceb477 *src/Time_Control.c
277d5ce8fa12e217206c68cbbac8f59e *src/Transition_Matrix.c
55b15d03dc063cd374bfcc6cf536c1d5 *src/UPGMA_CLUSTERING_PARTITION.c
f2aaf4b515a4fd9e4811a7e606928ec0 *src/config.h
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f38c906eb7755b6e89be31e46a539072 *src/da_IBT_Functions.h
4285f34045d33a630a12998ff6c82964 *src/da_IBT_Optimization.h
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44fb2476afb89aec1b08dedc33c35b99 *src/upgma_clustering.c
f76069d9ba15a3a065c1a83a78f99c22 *src/upgma_clustering.h
e34585fcb5896ccb6ae0cd537ae91f97 *tests/testthat.R
68c9c9e93850099e0adc278f58af19ab *tests/testthat/g1.rds
16c9be416966d154e779d03abe5f55cb *tests/testthat/g2.rds
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73fba360b695ba032772c91fa88457a2 *tests/testthat/g4.rds
50fb5908b9315bf6d0f56a37a4daa5dc *tests/testthat/i1.rds
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1ad529eb615d2856568dd7d3ffaaffcf *tests/testthat/test_environmental.R
9a4ff13876f865c4478e223c6e55207b *tests/testthat/test_general.R
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20f9b8ff1e34f3d037f1e46c400dd9d2 *tests/testthat/test_regular.R
41110422abee67fa1c190e09159b0b50 *vignettes/IBDmodels.Rmd
17c56e8ee2be559025f168bf2e7a9af9 *vignettes/detectability.Rmd
b5ff98ba6c5cb1111c869fd4e869a96b *vignettes/island.Rmd
