87a6d1ab7a0ea951e99e5c0bf853a535 *DESCRIPTION
67fa9acb41253784f6c4c7491c932fce *NAMESPACE
091e773a517e569ac60adbb0af3a1959 *NEWS
c40627ce643f8effbd3d406ea86be714 *R/HMMLikelihood.r
f1b31bcbd981e104a554befc05c54a2f *R/HMMutilities.r
bd7ac79a615cbc643a50e6e66e8fe805 *R/InitialDistribution_functions.r
0db4f7d8e2b90865d0507c13d286039a *R/Observation_functions.r
5367a503666117757584ffaa95baa697 *R/RHMMLikelihood.r
41cc092ab5b063e7677f1b926a2b4de1 *R/Transition_functions.r
6603566a55190da9e1238e56e5a6eed6 *R/admbutils.R
2fb2c40c3af76b9cdaa49eb9b43af28d *R/cjs.R
84fb083a2016c8d3ee5644f8c00f6656 *R/cjs.accumulate.R
4f13b9c18c43060b06767e6d684b74ce *R/cjs.hessian.r
e7b7b528611356cd28b8600146e37deb *R/cjs.initial.R
715c9447c4a54ef7fc59ba5131d2b582 *R/cjs.lnl.r
4cb6be2286750c18a702b6f5fac7f73c *R/cjs_tmb.R
a4e0cd56abdc6f910b87611e3aa5eb2b *R/coef.r
3c866ad5431e8057a1ae12fcf706baec *R/compute.real.R
fbba25aa21041cb01ffbe69fe0afab7a *R/convert.link.to.real.r
99459b2ec132bfbeec503dff55b32051 *R/create.dm.R
cb0b76f96708daa302402ca8753a86e5 *R/create.dmdf.R
7ff0b2f71c22523cdda71d01b79d663b *R/create.links.r
b8b5d7312f5859d408b8c71366d4e3b3 *R/crm.R
a9fe77272f6ee2bce8f86934d8ce9e8e *R/crm.wrapper.R
edc62ba4f9ee716ba24b02971b9c8af1 *R/deriv.inverse.link.R
1bbdcdf2d4afd936df0cfd1aa8fb57d3 *R/extract.fcts.r
258befcf07bbee8575d6a6be8fb3865d *R/fix.parameters.r
a5a9c1c49706f05eb8d8809f904126ae *R/hmmDemo.r
62cb5a01ce6e79bed60118d0b7b82da7 *R/hsmm2hmm.r
360d432d3310271e795a738d233ff5cb *R/inverse.link.R
8690ad8303c447739e3717474508508c *R/js.accumulate.R
ca4413867850cf686db42533c641f250 *R/js.hessian.R
07c3ac3a3b50710b203d8578cb6a2aa7 *R/js.lnl.r
5b22116b9592aa10ff41cc5b864ac1b4 *R/js.r
7b7aa05607f20c68e44c149d2cf9e890 *R/make.design.data.R
4bb98c26c0d7c200fbc6ed079e518bd6 *R/marked-package.R
45692791473a90588b683e1444d48945 *R/merge.design.covariates.r
65c4b6e644b74d9400029ab641069e68 *R/mixed.model.r
32436dd4bce762d0a0f870280ea3d8ee *R/mscjs.r
290a532f93a2f96d3917436caadeefb9 *R/mscjs_tmb.r
b3bdc25e670dec72e95083a4dbe97e9f *R/mvmscjs.R
bce5da28af77c055f5cccd0dd0d8e02a *R/omega.r
0607f461430bf3e1f0c8d07df3673f64 *R/predict.crm.r
06e79f9f5d7079ad822e40bd91c4b693 *R/print.crm.r
81015e72f78f9310229aaf6ca31f4efa *R/probitCJS.R
dfc17f66096532a4fba1dc50483c4085 *R/proc.formula.r
a0c91821349600bf0bfcdc3e6c151660 *R/process.ch.R
12a538dbef8d56eda43cf775c1c7d039 *R/process.data.R
69f8f1f0659d01e2dd884eb3489d65d4 *R/scale.r
b719aa4eb76539fff035e2fccb2e142d *R/set.fixed.R
1c42023723a05e10bd30b9263dfea73e *R/set.initial.r
ae8c2583a7bf902e6f9ec3b4ecbd2d73 *R/set_mvms.r
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f001c922fbdb56c6fb88a87e8cfb6bb6 *R/setup.parameters.R
313367e3ee4b1ebe86d0087e6697b75c *R/simHMM.r
df414d5feb5322190da175e7d756c0ba *R/simplify.r
04f8df5ac1eb7a3594bd5e8310419f1f *R/splitCH.R
74f1ee4cdcd104cf4c9868977e1a3a7a *R/summary.fcts.R
6be6618e9481274241ef95e1a327de14 *R/utility.R
71acdd849dbbd3e3e939cf17baa46724 *R/valid.parameters.R
561641eebf744b6804c4565e8d8b1ee7 *R/zzz.R
2f7faf30fd404e7e9febee6828c3a978 *build/vignette.rds
86fa75dacd73a1e0c85a547b19b08f0c *data/dipper.rda
4b9eee976b66f48fef85116c4ed6cc6f *data/mstrata.rda
58f69429b47c1db1cc263ff301cc1bd1 *data/sealions.rda
ff63c1e0027064173c0931b40f15ae50 *data/skagit.rda
22ae24131afb70bf87d86e44d239a737 *data/tagloss.rda
0ebf6fec500f52bc34a1f7cc9c683a16 *demo/00Index
3096feb9785fd012fec79c423cfa9320 *demo/tests.r
d629655019983d443e29a3f65ea71ed1 *inst/CITATION
28f953c339e702ed56d381d81ef13fa4 *inst/README.txt
31377c5134e9d67de0d3677b75d0a3ef *inst/cjs.tpl
600468762b822b4fb55551430468087a *inst/cjs_reml.tpl
1eb9898e5088a21eb615e62f13f06eef *inst/cjs_tmb.cpp
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d748980ac90f84bd03c5843e0c0896b8 *inst/xmodelm5.cpp
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429882a736452c775388880577558ec8 *man/cjs.hessian.Rd
7a13c0ac436cdbe0c378059eaedf6788 *man/cjs.initial.Rd
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8b95c7ce9a2c886bea1c2fa80bb2a43f *man/cjs_gamma.Rd
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9b94dcfac09deab963ca1a937f851823 *man/compute_matrices.Rd
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2dcb152b4b4af987dab18574bfdcabe8 *man/create.dm.Rd
640135585a529dfacf17706d2f99e621 *man/create.dmdf.Rd
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051179793a55ba1a4e52d63e26cee60a *man/create.links.Rd
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78ed933a31863adfca2966acb1998099 *man/crm.wrapper.Rd
72c357795a59a51af6709c8eeaf2e525 *man/deriv_inverse.link.Rd
612ddeea714c0158e504b2fa61522c07 *man/dipper.Rd
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6ea08fc6560a7527a8a5e926e0418ec3 *man/function.wrapper.Rd
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e991cd829aa29c425a4f521ab30034b3 *man/initiate_pi.Rd
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422e17cbb3e3157d539eb899fff93c62 *man/js.Rd
d8fc8378102d21b6feeea651af0ba687 *man/js.accumulate.Rd
223a4952f0aa362794c62ccc529dc3d1 *man/js.hessian.Rd
adfebd6b378076c5cd1fa9166485a910 *man/js.lnl.Rd
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9cb34bef9363ec470f88089fdcb3a951 *man/make.design.data.Rd
2be0de387f6c9a7c51e029dc080628cf *man/merge_design.covariates.Rd
b2a2d3355ecbec3b50dc4fbcd08d0dea *man/mixed.model.admb.Rd
b93e0ba6b4f9f517c09089f5b17be5fe *man/mscjs.Rd
f544da99398f0478eab4c2de4f78d672 *man/mscjs_tmb.Rd
57bbafc98fe4e97ba70d7ed09d3ecacc *man/mstrata.Rd
49efa9854c2bf8e6f37cf5064dbf9697 *man/mvms_design_data.Rd
74201a349eb704cb26072234aee0708a *man/mvms_dmat.Rd
b773c0588d29b473ee5a4fb74cb80394 *man/mvmscjs.Rd
79a9d68a17daf9b4a5a9ffee44984cad *man/omega.Rd
5718286485a83ad20d137bc26468dc6b *man/predict.crm.Rd
359f1e015bfc64e8c40b771c7c18dc3c *man/print.crm.Rd
a7eb50705f58513029e27ce76fdcdb4d *man/print.crmlist.Rd
abcf46f87be34c84114d510857777c1d *man/probitCJS.Rd
be763523d2449e01c14c447161097d6c *man/proc.form.Rd
a3a8079634979164023e89cc4c071295 *man/process.ch.Rd
1b7cc6cb64594bf44e5627d1e405c542 *man/process.data.Rd
8b3fd54982044ad5945dec8be3ba90c8 *man/resight.matrix.Rd
31865e5c40f5e87781ef38eb90824287 *man/sealions.Rd
84a3d661b80a1dc1aae1c7fd3b8a04aa *man/set.fixed.Rd
8f07aff4f09873b707b72f14ae9098b1 *man/set.initial.Rd
49b791a79bb779b24788ddbb9946c422 *man/set.scale.Rd
4ce657d57066b597425519e99a865516 *man/set_mvms.Rd
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3428a7691bcfc8c4af823fc79d356a5e *man/setup_tmb.Rd
8f38dc699e6bf0c06ce4f4aee506fd5c *man/simHMM.Rd
9962d968b6c769214ae90d319c23f915 *man/skagit.Rd
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6fe15e0182dc81370b0a577dbe4b7f3b *man/tagloss.Rd
8b3d712301c38ce7973645da0d1ad5c9 *man/valid.parameters.Rd
b3f86c20b81b51f5162874977d38784d *src/Makevars
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2e80757fbe08940fe169c82732e3fce2 *src/bayesCR.cpp
ace5af2bc79c40e34beee755fc027d15 *src/cjs.f
5122673881f927690dadc87343a0097d *src/cjs1tldmat.f
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9744443e95456b32926b54a13c61504a *vignettes/markedVignette.Rnw
f3ac5cfe03c5f4898e80280ddbfd9a30 *vignettes/markedWriteUpBib.bib
