e879eaad64aab8e1f8e63e298f5cea28 *COPYING
5d0c0d864877120098f82981df281eea *ChangeLog
088e4d3f793b778d611d0479333ec49b *DESCRIPTION
e33a06703cc18e92edaade036d7052c4 *INSTALL
493b7fdf72b039d15d51f2b0e3337464 *NAMESPACE
2b1f3a886beb707d6b447ccbea953aeb *R/asl.density.r
ca74e722804ad7f1a09dd4218cbb452d *R/asl.optim.r
473b1f527d7892f11bfbb3019e2abbdf *R/asl.probability.r
239e6fe4126353387e46c8a6d40990af *R/asl.quantile.r
95d7faf3dfadea343b7479e46fb6a53a *R/asl.random.r
b909f4eb82fddbad1e2b565fe174b45d *R/data.codon.convert.r
93e93ae8302de8f056544535f23d2389 *R/data.convert.r
f355d3d7d02246e8f0204e5f0957f425 *R/data.gen.n.r
b365197d29d01a7d8e0e99b755faaabb *R/data.gen.phi.Obs.r
8cee47d00d8dbb9c95ac68c7e21e75a2 *R/data.gen.reu13.df.r
a2a068cbdbde026f189668daf8068c0a *R/data.gen.reu13.list.r
d6e2bc7b5b6d235b5c0401524e188783 *R/data.gen.y.r
a87551da7a98cfb645f2bbe4591cfc82 *R/data.io.r
f1adfd9c835ec6227775f385b057a165 *R/data.rearrange.r
7a8618849fc56d113bf30e6b0dd09db7 *R/dsn.dirichlet.r
1f4addda82c4fd1887c7489bd0e7f0ac *R/dsn.logmixture.r
ff5569de6ada80490fbd21e6b04821fe *R/index.cai.r
f3f40f0bdfcaadccbed303a33803a428 *R/index.gen.scuo.r
2abdd7dd6e895fc647e226bd0e5bd85e *R/index.scu.r
e05bc34ea85f35b0c01fc3ff3fdae13a *R/index.scuo.r
39beec0a52d523997276544831ebb0b4 *R/index.scuo.random.r
e0eba17ffa8adfb2219fa61ff1e07825 *R/mixnormerr.optim.r
124468ef8e052b776c6d17052e543f0c *R/my.acceptance.r
28dfdaccb62dbf5c0982787e8569ca71 *R/my.adaptive.DrawScale.r
49c773bb0db053218bd4c6af8795ec79 *R/my.adaptive.r
041f7306d46f37876176377a79a97b1b *R/my.cat.r
69f3fd545fdd35703362eb9bc092b087 *R/my.check.rearrange.r
34e72b115a6f46f4bef5863892142c6d *R/my.coef.r
179dbfc00123b04bc613df4e6b1caef9 *R/my.cubappr.r
32f885ee98a935ed214ccfed5ffcf0e7 *R/my.cubfits.r
2d72f4287213d31108146b06a2d98b04 *R/my.cubpred.r
ef2226cea6dbfc6a08868d5dcdf109c0 *R/my.drawBConditionalAll.r
1e2090dcb94e3f70f219998da0400f1a *R/my.drawBConditionalFit.r
9968454639c85fb1fc7587a032d0f8ed *R/my.drawPhiConditionalAll.r
b14b4f228b8f3fa89a05c336f5267c57 *R/my.drawPhiConditionalAllPred.r
800cafc64cbc221a8431828de39ca7c8 *R/my.dump.r
3ee558544ff152762ee91568b0fc3722 *R/my.estimatePhiAll.r
cf1188c2e776461a8a0ae80743623443 *R/my.estimatePhiOne.r
adcd7f0e679006c83baa3d72fb50d0e9 *R/my.fitMultinomAll.r
9f064286e2ab605135ada0353b28cd1e *R/my.fitMultinomOne.r
6ae8f192a8ac3f10b2b3b0b96edcaf13 *R/my.init.r
d551429cd326f5a4275d7fb458a8eca1 *R/my.init_param.r
d6e0ca07921508e1069df546a949e87a *R/my.inverse.mlogit.r
ce345bcaf1c19f19a89addd9c1870bac *R/my.logLAll.r
0e4b1d2e3c9205d56dffbdee94bea94a *R/my.logLAllPred.r
2ce0c100c6f9946ca27637861fc9eb16 *R/my.logPosteriorAll.r
ad5b587cc056d14fb5b481cd7d23c657 *R/my.logPosteriorAllPred.r
4b57c5bb38e7b7da9c1ab94dcc68ff9b *R/my.logdmultinomCodAll.r
71b7078763b9035fb11c90107a13dea9 *R/my.logdmultinomCodOne.r
2b960346f1eefef636207627d095651b *R/my.objectivePhiOne.Lfp.r
adca24173704a891875f81aa640192c6 *R/my.objectivePhiOne.nlogL.r
cff3e7323f65e41ee7e886cbe5c37273 *R/my.objectivePhiOne.nlogphiL.r
b040366d0fade574357d6cb141594604 *R/my.objectivePhiOne.phiLfp.r
586a28d873f567123f2874677eb1a691 *R/my.pPropType.logmixture.r
7e6f24552823e9f4397d7b0d5a4af899 *R/my.pPropType.lognormal_MH.r
5fcdf10b600e6530b80123c46d79c50a *R/my.pPropType.lognormal_RW.r
1c00a2dfd3efac2f57889d1001c78737 *R/my.pPropType.r
06ca03e955fb03541daa94d56dc707cc *R/my.pPropTypeNoObs.logmixture.r
ae76ee14024c3b41770f8360d8588465 *R/my.pPropTypeNoObs.lognormal_MH.r
3372202432540582bf0f6313c120c4d3 *R/my.pPropTypeNoObs.lognormal_RW.r
f73aaa40316e146f93d3b8c15a84c8fc *R/my.pPropTypeNoObs.r
50d40ddd827bbb76e2b3f57e1a8f2dc6 *R/my.pPropTypeNoObs_MH.r
cf0dcf8bfb1b0639a33ee45cfb4ffbde *R/my.print.r
caf91680a3ab0e69e127b55a9637de7e *R/my.proposeBeta.r
824bb472bd96ae0e55274d4b348bd2be *R/my.proposePhiAll.r
2e3c498094a568599f43d021cf2e3e50 *R/my.proposePhiAllPred.r
50ea8ba04ae4ab8ac5041f3efb761ae5 *R/my.stop.r
20d15f38b5de3b482e389f834d277447 *R/my.util.r
270f549d3712d2f8d0de03100759d6e3 *R/my.verbose.r
38a6d2cebb3fb62721e74d087360de55 *R/plotbin.r
eee2ab279afa6cf6ea7889b87aff73fa *R/plotcolor.r
24df4ae49ac3fdf5bac7e437efded00b *R/plotmodel.r
13a29fbd82da43c2c4f03725188d3758 *R/plotprxy.r
7910e303c74dccd94a78c5d33b356669 *R/prop.bin.roc.r
96b4aadb2aa3614b11dff7727ccfbecf *R/prop.model.roc.r
83480458702bc80daaeec6f4f6429bfc *R/simu.mixnormerr.r
cb41decc4baf60c7274e6fb29d1365a0 *R/simu.orf.r
0df2909ceac966f21b0f810a4229520d *R/simu.phi.Obs.r
c4d113e8f82a85e2930cc1b693e34a11 *R/workflow.create.r
76ac89a46e8269a96fa9313296343fe1 *R/workflow.get.expath.r
c817d7ce37c173f6b45510047333ed67 *R/yyy.r
8bf0b8e0c7e0be00fd511d20d9686acd *R/zzz.r
e8124e5f6036b5019cf3c89e1c16f649 *README
dfb0c1e2ebd656b43ae887fc9b6ca64c *cleanup
1404ecdf60a49d6642d5b9b3b6a67a54 *configure
be9e5a52d314a5d48eb9230dc138d964 *configure.ac
d41d8cd98f00b204e9800998ecf8427e *configure.win
7c061d2bc004d773280403f8a1f54197 *data/bInit.rda
1df505a5f0ad6fefcc96480180052a30 *data/control.r
4d35b394d2b292ae613cd5e189e2b544 *data/control_optim.r
1cf0a243562b833c683981f1a8faed70 *data/envir.r
12f201e08368f81b287c970aa4e85303 *data/ex.test.rda
645059d9b511669d12e58cc9748c0561 *data/ex.train.rda
85993ad9ed733ab1433dfe473309c85d *data/global.r
319ceccd7d8361949f69f44a2fd54a68 *data/plot.r
60294f28747cc571d2768bfc40cf86f0 *data/yassour.mcmc.rda
7b5b39fdc634704cf73245aa2d62e8bd *data/yassour.rda
638cfda677e152ded8c805e015713300 *demo/00Index
acfeb69bb69f25b4064871015f319e7b *demo/basic.r
077496c5ebbbd96575da91ca21bc8e87 *demo/cai.r
8ba02118ed4f615347896f744e16d61d *demo/fitMultinom.r
a804fbcbc459f318fae32a87609e1373 *demo/mSCU.r
6ba72b2b8834a16aa76513791e45a6e5 *demo/nsef.appr.r
1a5127f5586defa77e3b99bf89cb174d *demo/nsef.pred.r
08666bd7457325d51ffa0fa1fc3017f5 *demo/nsef.simu.r
0b547356df3c75b2e9dd6ab51acf9c3a *demo/nsef.train.r
02d5e6eb052c17ef127dfc0d8dfbf5cc *demo/plotbin.r
ac7b916c84d74341e27766a082156748 *demo/roc.appr.r
7c8bad76029191d98416f286ebd7f506 *demo/roc.pred.r
b7dd31e903ea88dee8e449b4f0d74e6f *demo/roc.simu.r
2aedfb1b561863d598e329753ecce164 *demo/roc.train.r
fbcd38615215fcaeb08c888d19d424a6 *demo/rocnsef.appr.r
bd47152839184c65cd2e66fda7e69ccc *demo/rocnsef.pred.r
ccafa1ce6eedc221e8ac14bf1400f854 *demo/rocnsef.train.r
5ef31f722f4398138e5741eff1d10e6b *demo/scuo.r
01487c8d0b3846175bf2d8b7f8a36894 *demo/yassour.asl.r
fa6e95bd1142ed967ded31f2d846e650 *demo/yassour.mixed.r
87d0fa052902927a93c4ee105656ce4f *demo/yassour.mixture.r
6424333c7caec7810e37b1276bb4448d *inst/CITATION
d781515dbf60a2ac5617ea28dbc9e9ea *inst/doc/cubfits-guide.Rnw
2f9b266160ae8e685d8ada38b8d0a943 *inst/doc/cubfits-guide.pdf
df618bbc8c06c240f30b5c17aa6163c1 *inst/ex_data/phi_200.tsv
abc26498b0d71b2480315c5dccdda8a3 *inst/ex_data/seq_200.fasta
127cb80b5a19e6466472de1edd138268 *inst/workflow/00_readme.txt
04c760bc82c9bd5f723b856b1a88dc92 *inst/workflow/nsef/code/00-set_env_simu.r
e8b835edbca41996b51a0b93d715af76 *inst/workflow/nsef/code/00-set_env_wophi.r
2e7ad61b30102f1c71ae2f3cd471c9b0 *inst/workflow/nsef/code/00-set_env_wphi.r
87f974fd67c310b572da996f31926c95 *inst/workflow/nsef/code/00-set_env_wphi_wophi.r
6b07063cbfb5c17828415e0cc0443664 *inst/workflow/nsef/code/01-mkdir_output.r
712234b902417ded75690d3e7ade8bb1 *inst/workflow/nsef/code/02-get_data.r
e2216ba5a456db2856c95e29ea7a75be *inst/workflow/nsef/code/03-get_init-tp.r
8936c49821e0dc1fbac134cc843484e0 *inst/workflow/nsef/code/04-ad_wophi_pm-tp.r
cdd4c9b8095afc88cbfc1c86499a575b *inst/workflow/nsef/code/04-ad_wophi_scuo-tp.r
434f0e186db1cbe11186bf5b77a64196 *inst/workflow/nsef/code/04-ad_wphi_pm-tp.r
8bb4ceac36ecf3a2eb776a0a980ebdb3 *inst/workflow/nsef/code/04-ad_wphi_scuo-tp.r
cf0584b439024cee0730a6b01e6163dc *inst/workflow/nsef/code/04-ad_wphi_wophi_pm-tp.r
351a080bf916eb764253558465d79b6e *inst/workflow/nsef/code/04-ad_wphi_wophi_scuo-tp.r
a314d5ef1a0012f651857ad1822eca96 *inst/workflow/nsef/code/05-subset-tp.r
fcd6300979cde41b46714fc20512fab0 *inst/workflow/nsef/code/05-subset_tsv.r
a71c8ac4becb7b40e741604fe8d6d55c *inst/workflow/nsef/code/s1-generate_data.r
7fbd4fc37b2737e39c58bb2af52b183c *inst/workflow/nsef/code/s4-ad_wophi_true-tp.r
17922f113f147348752cf31b5da813f0 *inst/workflow/nsef/code/s4-ad_wphi_true-tp.r
5c3fb59be73e5fc8c3c1c127dadb646d *inst/workflow/nsef/code/u1-get_negsel.r
2898592c2e2bb7f6afb11dd854ea3ec9 *inst/workflow/nsef/code_plot/03-plotdiag_bin_est.r
bc2d7fd62fac48776c377a661d5b9543 *inst/workflow/nsef/code_plot/03-plotdiag_init.r
68864b43eff2e56a22c21551c9a09e84 *inst/workflow/nsef/code_plot/06-plotsingle_model.r
d2fe3ee57aad62a626511f2dff0fb751 *inst/workflow/nsef/code_plot/06-plotsingle_prxy.r
6358e10e1191e248002377f5c07169be *inst/workflow/nsef/code_plot/06-plotsingle_prxy_wci.r
f690412fe1d854c6747d1a162a850f28 *inst/workflow/nsef/code_plot/07-plotdiag_EPhi_hist.r
71b93682352f89550ccf4085d5ce3ef6 *inst/workflow/nsef/code_plot/07-plotdiag_accept_hist.r
2e23739f1d89df83be2b3ffb286f440e *inst/workflow/nsef/code_plot/07-plotdiag_acceptvsEPhi.r
4dbd1acfbf30a1eef4a95f380eeaf0e8 *inst/workflow/nsef/code_plot/07-plotdiag_bin.r
9fdd1ec65650f5a5fbc95a1e11eabf80 *inst/workflow/nsef/code_plot/07-plotdiag_medPhi_EPhi.r
c0f872d877937e948ccce6a917bc16cf *inst/workflow/nsef/code_plot/07-plotdiag_scuo_cai.r
46cb6fe8e4f6e924608b289ba596a16d *inst/workflow/nsef/code_plot/07-plotdiag_sigmaW_hist.r
d5c035eb781c08318a556fa34d15515e *inst/workflow/nsef/code_plot/07-plottrace_logL-tp.r
873a6e854f141674824be2394ea9bad3 *inst/workflow/nsef/code_plot/07-plottrace_param_meanEPhi.r
2cffc4a606aedec26cc65143f4def56e *inst/workflow/nsef/code_plot/07-plottrace_prior.r
f8a1a59fc02f7864926e687121b9d449 *inst/workflow/nsef/code_plot/07-plottrace_quantile_Phi.r
48f377ed97644d5f5567ad17d0567255 *inst/workflow/nsef/code_plot/08-plotmulti_wophi_scuo_wphi_pm.r
5c277447458727781713273f84bd824b *inst/workflow/nsef/code_plot/m6-plot_b_corr.r
811717bb4910cd7e87b8c45befda7a3f *inst/workflow/nsef/code_plot/m6-plot_b_corr_negsel.r
d44d92798c2333fddbebf914517c4a70 *inst/workflow/nsef/code_plot/m6-plot_prxy.r
66520ecf955483c844a8b05e7155fd63 *inst/workflow/nsef/code_plot/m6-plot_prxy_wci.r
f4571003300ac895c698f599d2e44a7a *inst/workflow/nsef/code_plot/s1-plotdiag_simu_phi.r
5e8c40581ec0bcdeb99367e2823e46df *inst/workflow/nsef/code_plot/s2-plotdiag_bin_true.r
05ce250af8f4f9edc0f5e878471bc577 *inst/workflow/nsef/code_plot/s3-plotdiag_bin_est.r
71345340b1a4e09605d4784b9eef1adb *inst/workflow/nsef/code_plot/s6-plotsingle_b_corr_true.r
027b5a221603e561eaa1cb874d830061 *inst/workflow/nsef/code_plot/s6-plotsingle_model_true.r
1fc91b9d9d87b28619f0b98dbb48b57b *inst/workflow/nsef/code_plot/s6-plotsingle_mscu.r
1fc91b9d9d87b28619f0b98dbb48b57b *inst/workflow/nsef/code_plot/s6-plotsingle_prxy_true.r
a7640b74617f2826d7f21651e2e96d9b *inst/workflow/nsef/code_plot/s6-plotsingle_prxy_true_wci.r
48f437aa0a50b53b0e27d8f0a7bd196d *inst/workflow/nsef/code_plot/s6-plotsingle_scu_mscu.r
f4c25d8bb3f61c441189a593eaeca813 *inst/workflow/nsef/code_plot/s8-plotmulti_true.r
fde1ff5a3933d47464fb4cba43dfd841 *inst/workflow/nsef/code_plot/u0-get_case_main.r
9efab1837c52b16fabb78299e45e18bd *inst/workflow/nsef/code_plot/u2-plot_b_corr.r
bd674a9c3d004333bae2502159737ffe *inst/workflow/nsef/code_plot/u3-plot_trace.r
6bfdb4aefadc072af5837ac04314bf15 *inst/workflow/nsef/code_plot/u5-new_page.r
448fcbd151cd5581560adcbb6eeca2be *inst/workflow/nsef/script/simu_run_0.sh
953f72bc70e70e10283cce4b7285d0cb *inst/workflow/nsef/script/simu_run_1.sh
fb7718ddb75f82665f876b4038165b43 *inst/workflow/nsef/script/simu_run_2.sh
e6b5013332a4598c7cc9bcdb61400f40 *inst/workflow/nsef/script/wophi_run_0.sh
e1ee0b8ca690e09cc4f8a0ec9abd2bfe *inst/workflow/nsef/script/wophi_run_1.sh
3f3b28cdb9786dc9047e7d76d0301bd3 *inst/workflow/nsef/script/wophi_run_2.sh
a954b7477e09b22beb8e287fccbd9651 *inst/workflow/nsef/script/wphi_run_0.sh
ebf229642e2cd526fa6e62a1c4079433 *inst/workflow/nsef/script/wphi_run_1.sh
74bf4924236636318cb8c088a1add1d9 *inst/workflow/nsef/script/wphi_run_2.sh
f1dfc822f69c6d7de8c73da2b52b0e5d *inst/workflow/nsef/script/wphi_wophi_run_0.sh
8fc0c42a1db7cbbe1f4d3564ee167f2e *inst/workflow/nsef/script/wphi_wophi_run_1.sh
652e5771658c41b6520d6c0c9252ba2d *inst/workflow/nsef/script/wphi_wophi_run_2.sh
740c58a4f6747668c47ec8dc3637d7ec *inst/workflow/param/small_bInit.rda
7f336988579f947a36dae9d1a362c8d1 *inst/workflow/param/small_length.rda
282b87c0e15e67e2636d660d1afee91f *inst/workflow/param/small_train.rda
a44b38bbb00db5574dc310280eb904eb *inst/workflow/roc/00_readme.txt
bd57ce0981d15af23a41d2794c2a003a *inst/workflow/roc/01_code.txt
cedec1773a6f8e553d75244e1ea23108 *inst/workflow/roc/02_plots.txt
526623994948bb9d075861abcfc390dc *inst/workflow/roc/code/00-set_env_simu.r
0e79be23323909d6b8b79d93e29a11b6 *inst/workflow/roc/code/00-set_env_wophi.r
6b2956eaa44c6b013a562226ea6614cc *inst/workflow/roc/code/00-set_env_wphi.r
7381f21cf9ab2230a3d50a1289d8d5c4 *inst/workflow/roc/code/00-set_env_wphi_wophi.r
6b07063cbfb5c17828415e0cc0443664 *inst/workflow/roc/code/01-mkdir_output.r
8efbae6818abc9e7aebf41f870daa4c8 *inst/workflow/roc/code/02-get_data.r
cddf27ac4da699faa1ef9a9ee3269b2b *inst/workflow/roc/code/03-get_init-tp.r
8936c49821e0dc1fbac134cc843484e0 *inst/workflow/roc/code/04-ad_wophi_pm-tp.r
6fda5040868bf38180dbf829b0535209 *inst/workflow/roc/code/04-ad_wophi_scuo-tp.r
434f0e186db1cbe11186bf5b77a64196 *inst/workflow/roc/code/04-ad_wphi_pm-tp.r
cc52321ef1e8f9e2988a9b55a7ecb8d7 *inst/workflow/roc/code/04-ad_wphi_scuo-tp.r
cf0584b439024cee0730a6b01e6163dc *inst/workflow/roc/code/04-ad_wphi_wophi_pm-tp.r
351a080bf916eb764253558465d79b6e *inst/workflow/roc/code/04-ad_wphi_wophi_scuo-tp.r
456ce80b71733c1160e3b454ea70b9fe *inst/workflow/roc/code/05-subset-tp.r
968d5d2fc2cf09ba262f1bc02563ae9b *inst/workflow/roc/code/05-subset_tsv.r
a71c8ac4becb7b40e741604fe8d6d55c *inst/workflow/roc/code/s1-generate_data.r
7fbd4fc37b2737e39c58bb2af52b183c *inst/workflow/roc/code/s4-ad_wophi_true-tp.r
17922f113f147348752cf31b5da813f0 *inst/workflow/roc/code/s4-ad_wphi_true-tp.r
e60c36b862f107286274cc63e2c6997e *inst/workflow/roc/code/u1-get_negsel.r
d43e6be097021a1c9a8618766c7ab144 *inst/workflow/roc/code_plot/03-plotdiag_bin_est.r
d2987a5e05283844b52ce4777c8fba99 *inst/workflow/roc/code_plot/03-plotdiag_init.r
bb9342108a669536b17a360e0452a744 *inst/workflow/roc/code_plot/06-plotsingle_model.r
4362f151e2742bdf83f6d6d212a1a9dc *inst/workflow/roc/code_plot/06-plotsingle_prxy.r
3f3add7421e19f26fc577b5c40fbad9c *inst/workflow/roc/code_plot/06-plotsingle_prxy_wci.r
096474d9f3df93cb1838d97bdac5997e *inst/workflow/roc/code_plot/07-plotdiag_EPhi_hist.r
5b4d28704cccc90baa3196272f395a4e *inst/workflow/roc/code_plot/07-plotdiag_accept_hist.r
5e5d4cfdefbca76e64db107416379d0d *inst/workflow/roc/code_plot/07-plotdiag_acceptvsEPhi.r
a5b898102e0d14a10a8d549d495a295f *inst/workflow/roc/code_plot/07-plotdiag_bin.r
a16460b53c3245b4c02666c58ec85a10 *inst/workflow/roc/code_plot/07-plotdiag_medPhi_EPhi.r
c02e980f7091d3d54f6bf142f54f5e99 *inst/workflow/roc/code_plot/07-plotdiag_scuo_cai.r
b10713ba847fcf375197517948b9f60d *inst/workflow/roc/code_plot/07-plotdiag_sigmaW_hist.r
231cfd81d61a2a3364e25bee8237bab1 *inst/workflow/roc/code_plot/07-plottrace_logL-tp.r
d59966faa41b92defeb47ba4956974d7 *inst/workflow/roc/code_plot/07-plottrace_param_meanEPhi.r
5f2d6a40740c29305a75b649170555c5 *inst/workflow/roc/code_plot/07-plottrace_prior.r
72324c8b0b58b1e760a6660a6d734026 *inst/workflow/roc/code_plot/07-plottrace_quantile_Phi.r
c00b50fd40f0ee5ea015374d326da2c8 *inst/workflow/roc/code_plot/08-plotmulti_wophi_wphi.r
35d4b055cc51162c6d62c68074ff9955 *inst/workflow/roc/code_plot/m6-plot_b_corr.r
b2e2363acd4aa3493eb119b2d5997e3d *inst/workflow/roc/code_plot/m6-plot_b_corr_negsel.r
2a725a243dc495dbdfe0d11f104036bb *inst/workflow/roc/code_plot/m6-plot_prxy.r
a75b6ac9c54ededa133dd7392c7f9ded *inst/workflow/roc/code_plot/m6-plot_prxy_wci.r
b7917d11d3815d6f2855c9013c5182d2 *inst/workflow/roc/code_plot/m7-plot_bin.r
39c47b103847661a2f3dc67c297bbbd1 *inst/workflow/roc/code_plot/s1-plotdiag_simu_phi.r
fe22ac25b02fe5679f4ba9476b097913 *inst/workflow/roc/code_plot/s2-plotdiag_bin_true.r
00575b9f13e358e40f956c4e5f48344e *inst/workflow/roc/code_plot/s3-plotdiag_bin_est.r
fd24a570e05fb3b83d11c9278ac93d76 *inst/workflow/roc/code_plot/s6-plotsingle_b_corr_true.r
eb4418cccf0822cd5bd903a8550fab16 *inst/workflow/roc/code_plot/s6-plotsingle_model_true.r
b71bd31dac99406c54e56fc20b2c4044 *inst/workflow/roc/code_plot/s6-plotsingle_mscu.r
b71bd31dac99406c54e56fc20b2c4044 *inst/workflow/roc/code_plot/s6-plotsingle_prxy_true.r
851526502e16530a3e0ff9934c0dde08 *inst/workflow/roc/code_plot/s6-plotsingle_prxy_true_wci.r
5bf03f7c37fb92facfd9f815a63ed94b *inst/workflow/roc/code_plot/s6-plotsingle_scu_mscu.r
f10a7cb4c6be2504027f470ec24c54c0 *inst/workflow/roc/code_plot/s7-plotaa_deltat_true.r
18d4437cbe59b4630d1fb7bdb7dcd1cc *inst/workflow/roc/code_plot/s8-plotmulti_true.r
fde1ff5a3933d47464fb4cba43dfd841 *inst/workflow/roc/code_plot/u0-get_case_main.r
a1d2cdaaaa5598106b6adca26b11f09a *inst/workflow/roc/code_plot/u2-plot_b_corr.r
18bb0db638ae8c3c4271273cffea2a8e *inst/workflow/roc/code_plot/u3-plot_trace.r
4f0abc42ad3bc0bee4ace053769a3671 *inst/workflow/roc/code_plot/u4-plot_aa_allinone.r
219dd539c294e5a369b3c123145f62c9 *inst/workflow/roc/code_plot/u5-new_page.r
4497d025ee92276bb1f5cfc9dd8aadd6 *inst/workflow/roc/code_plot_nps/06-plotsingle_model.r
77ea3befd0d3aefaef183bcfa6096263 *inst/workflow/roc/code_plot_nps/06-plotsingle_prxy.r
ead381aa715c527f2fa3cd958cae2900 *inst/workflow/roc/code_plot_nps/06-plotsingle_prxy_wci.r
59578605c2038d78fc8d98fbd11eab3f *inst/workflow/roc/code_plot_nps/07-plotdiag_EPhi_hist.r
7c4ae6550503caac2de21ac29f6d8d74 *inst/workflow/roc/code_plot_nps/07-plotdiag_acceptvsEPhi.r
ed18cb3d88110a4fa3052e38b70640f1 *inst/workflow/roc/code_plot_nps/07-plotdiag_bin.r
64901e36f226ae2e57986a117662f761 *inst/workflow/roc/code_plot_nps/07-plottrace_logL-tp.r
524ed23f2f4d8ebfe57aacd890beb591 *inst/workflow/roc/code_plot_nps/07-plottrace_quantile_Phi.r
f6bd9c7467c24fa1b3d3bc97aad1ef70 *inst/workflow/roc/code_plot_nps/08-plotmulti_wophi_wphi.r
eeeb3b80a9d7b6f3d2ca498d9a0c3776 *inst/workflow/roc/code_plot_nps/m6-plot_b_corr.r
5ce8f7fb5ccb29dc434e5a8baec08766 *inst/workflow/roc/code_plot_nps/m6-plot_b_corr_negsel.r
83376b296dd0448e81d492a5b65a7402 *inst/workflow/roc/code_plot_nps/m6-plot_prxy.r
49b9114a391f65dc71617fed3417ae37 *inst/workflow/roc/code_plot_nps/m6-plot_prxy_wci.r
a4da6af418c1f604319be3740c0a7bb3 *inst/workflow/roc/code_plot_nps/m7-plot_bin.r
95611a8433516abaecb609bd40767cf2 *inst/workflow/roc/code_plot_nps/s6-plotsingle_b_corr_true.r
b612ba845db524b031e1d5120102cc2e *inst/workflow/roc/code_plot_nps/s6-plotsingle_model_true.r
7e85698a37957bc220d919d3e1090890 *inst/workflow/roc/code_plot_nps/s6-plotsingle_mscu.r
12a33363091781bec0c0769b4a685ffd *inst/workflow/roc/code_plot_nps/s6-plotsingle_prxy_true.r
7592b71f518b1170b8fd36d1451bc4de *inst/workflow/roc/code_plot_nps/s6-plotsingle_prxy_true_wci.r
996c003d7d754cac40a35f13af3d68d5 *inst/workflow/roc/code_plot_nps/s6-plotsingle_scu_mscu.r
c0844d6fa0da6ce21f713ac8485c7731 *inst/workflow/roc/code_plot_nps/s7-plotaa_deltat_true.r
c23882cbaab0e109938d908d119f1dc1 *inst/workflow/roc/code_plot_nps/s8-plotmulti_true.r
1d899ff7a61b01e6a18aecc1558868e8 *inst/workflow/roc/code_plot_nps/u0-get_case_main.r
02b4e023a99b3672377f49345c9aa714 *inst/workflow/roc/code_plot_nps/u2-plot_b_corr.r
18bb0db638ae8c3c4271273cffea2a8e *inst/workflow/roc/code_plot_nps/u3-plot_trace.r
4f0abc42ad3bc0bee4ace053769a3671 *inst/workflow/roc/code_plot_nps/u4-plot_aa_allinone.r
219dd539c294e5a369b3c123145f62c9 *inst/workflow/roc/code_plot_nps/u5-new_page.r
3e7b752fa03658969b6fb76cb713af3a *inst/workflow/roc/script/simu_run_0.sh
83616a994ab74767e57d43d7f93d67a8 *inst/workflow/roc/script/simu_run_1.sh
6ede27be878d5b7a54265c1c1c4ab866 *inst/workflow/roc/script/simu_run_2.sh
343d233afc67885c20c9c8aec02bb964 *inst/workflow/roc/script/simu_run_2_nps.sh
12163e0be8d7b86f44d4fd45c1553906 *inst/workflow/roc/script/wophi_run_0.sh
1b589b7ecd5846a23d5fa742e3992df2 *inst/workflow/roc/script/wophi_run_1.sh
23481cdac0e24db645223c5e0247cc1f *inst/workflow/roc/script/wophi_run_2.sh
1f2ab8064fc69f40897710cc8be58ecf *inst/workflow/roc/script/wophi_run_2_nps.sh
1d976fcd7f13f5aa4b0e0f283553427c *inst/workflow/roc/script/wphi_run_0.sh
c8fe197854dc0f8c3613c22d5b25d071 *inst/workflow/roc/script/wphi_run_1.sh
ffcbeeb4ca3dbd72a9ee5ed1dbcabcb6 *inst/workflow/roc/script/wphi_run_2.sh
758f5ad69aebef957a2ee1c5bdb911f6 *inst/workflow/roc/script/wphi_run_2_nps.sh
bc91c7cf95e3b2a88e2baafffac81fc6 *inst/workflow/roc/script/wphi_wophi_run_0.sh
2b18287df794c2d2fe504524acf59580 *inst/workflow/roc/script/wphi_wophi_run_1.sh
e635dab0f21fcae6795a5edb731ceffd *inst/workflow/roc/script/wphi_wophi_run_2.sh
7265e1470a7c7271028d5b7020c1c301 *inst/workflow/roc/script/wphi_wophi_run_2_nps.sh
8caefea3f719fde48d86534f3b7feb4f *man/00_cubfits-package.Rd
824396b9f362b4f6a41f83d21f208521 *man/a1_cubfits.Rd
ef362b9da8ac360ae67972c67012763d *man/a2_cubappr.Rd
177faa83eed3f13009d66f1f7033c6e5 *man/a3_cubpred.Rd
6e7dc6067577a5e3269e8d5af398bf30 *man/b0_plotprxy.Rd
d9281260fc35040185de182022ef3d76 *man/b1_plotbin.Rd
74a036aa72e0ff591ab2ba0f39d79338 *man/b2_plotmodel.Rd
f8138818ebd6604a4cc5b685812c09f5 *man/s0_init.function.Rd
f411528b6c447909fcb8abaa4a82b93b *man/s1_fitMultinom.Rd
8ac3363f08089ff659e5496a07040755 *man/s2_estimatePhi.Rd
02a9d56bea44c43b76143dec073e4282 *man/t1_simulation.Rd
7412e6b9330d98b3476e334c4c76c233 *man/t2_scuo.Rd
2952c571768fcb5e619c8982752719f2 *man/t3_scuo.random.Rd
275bb83346d2955a72ce20f8bb5661cf *man/t4_cai.Rd
1165667fe06d15303299de0b6d8f4be1 *man/t5_scu.Rd
14e5075459258e1eaf4ced23e6f84876 *man/u0_io.Rd
5576c4c789c6a35784c8f7919e405878 *man/u1_gen.Rd
b9e8b2ce9ef76c2f25567208b6e08b9f *man/u2_convert.Rd
d5c167050b9ae0cbeb68100c7a050253 *man/u3_rearrange.Rd
cb9c03470701786b24309ac1896a5407 *man/u4_asl.Rd
210d309805967ac4782a43c1e04d754b *man/u5_mixnorm.Rd
8aea536ae0f4d06b600479748ad073d9 *man/vv_print.Rd
4f6a6a805f26dfd82e48c07532ce9afb *man/xx_dataformat.Rd
485b0fb0dc3ca97f729cbc3d5a638e03 *man/yy_control.Rd
8f0de37046dd631e02894606a3d9c72f *man/yy_dataset.Rd
5138356fa900f404d6a52195993760f6 *man/yy_yassour.Rd
4c9bb94c5475a4894164f40d8dadfba2 *man/yy_yassour_PM.Rd
3a884fc72f2bf8e384643bb3be22cd9c *man/zz_internal.Rd
65a4f67ec623ac95cfe08723a2aa35a0 *src/lib.c
150c6b3eb03b5f9fb8233023435b5300 *src/lp_c_raw.c
a9f81c91a41a90713401e4d19610cc4f *src/stable_exp.c
9154efc3fc9c3840ecb8ff939deb2afb *vignettes/build_pdf.sh
d781515dbf60a2ac5617ea28dbc9e9ea *vignettes/cubfits-guide.Rnw
4a67594359eabdad137273bf89955cfc *vignettes/cubfits-include/00-preamble.tex
40a4c414b25fabab658c3f8d72387db4 *vignettes/cubfits-include/01-acknowledgement.tex
624fe2277b9b4d8cb61204081313d2ea *vignettes/cubfits-include/01-copyright.tex
2b600114972beb366c650a41141b635c *vignettes/cubfits-include/01-introduction.tex
e5a7ce17a379aba0b6f4d1fbc448a898 *vignettes/cubfits-include/02-main_functions.tex
f7252c5c20bb608f6307d57979040c2f *vignettes/cubfits-include/03-speedup.tex
518f1a71047c7bebd860895a4f10ecc6 *vignettes/cubfits-include/04-workflows.tex
c85a69840f87f82c8db783d34b77ed57 *vignettes/cubfits-include/05-utilities.tex
53e0d7e878deb33a2d47303b0d104ed7 *vignettes/cubfits-include/06-misc.tex
da77dda21ce95ddfecb303b3a03104c3 *vignettes/cubfits-include/cubfits.bib
126a3ec4b1c8e46730269f171b6950e0 *vignettes/cubfits-include/figure/avg_run_time.pdf
51f86c0612159958f2f912f18e56a821 *vignettes/cubfits-include/figure/fitMultinom.pdf
2155a911bf542c905b2db78640476ca1 *vignettes/cubfits-include/figure/more_asl.pdf
e3a3f5d37c83f3f93f0c3e7ba8cfdfc3 *vignettes/cubfits-include/figure/more_mixture.pdf
a3bc4724cb7a5d011fffb3d8cfe70b54 *vignettes/cubfits-include/figure/plotbin.pdf
48085ba4619b97cef16ddad6e93db4dd *vignettes/cubfits-include/figure/prxy_roc_ad_appr_pm_5k-10k.pdf
a9e01e713906b8ffc474364c5e33da5b *vignettes/cubfits-include/figure/prxy_roc_ad_fits_pm_5k-10k.pdf
48669c4e55fe2392469dcf01641c5c06 *vignettes/cubfits-include/jss.bst
2788eb040a3963a635ac6b31c5286303 *vignettes/cubfits-include/jss.cls
