d7cfa14ed5fa004198a3b5e5ca3c39f9 *DESCRIPTION
07c88692ce88af0dd308506193834202 *LICENSE
8200de9dc6dc2dd6066d09dd09915552 *NAMESPACE
d11286a50a4f9bc3a576fa8da71d6210 *NEWS
ad312051bb3d9e3f6bc8b30fd52619e5 *R/MCMC_chain.R
4a5952f891f72a6e3a050cbaefcf8d26 *R/RcppExports.R
8613120e44a188b187430824872f6865 *R/check_required_columns.R
d130fd197f45d8d0bdfb7a78ae98c02b *R/compute_probabilities.R
0040e7d8aa806ebf024df9574423ae9e *R/globals.R
e1f4e7f03efea2ae233f80ef7006a029 *R/likelihood.R
a71c6783463bec0cfba284b207e12565 *R/likelihood_potts.R
dba9820240b0e62c05f1fbb30c22776b *R/posterior.R
b25ad70cc2ded8147d2a7830f72ce14a *R/posterior_density.R
8aa53e0fee79dc4a62b3e2e69b216c67 *R/potts_posterior.R
ed291a831f37e8b7b5905fb22e36be69 *R/prepare_data.R
724767373eab5462207f43a059a6f7b4 *R/prior_modelling.R
3e99cf30ba4c75a8160f4c37ff4eafdd *R/prior_modelling_size_NB_ZINB.R
f4ccabd3084c4b67b34187d727625303 *R/prior_potts.R
219caeadd294478f5b7318105c41f7a0 *R/process_data.R
f6182b8998a5074334308e791397f3ab *R/proposal_potts.R
a86fc0d9c07faef2ca4f8b0c19de46ff *R/run_chain.R
8bd85e2a815faec2d0f565abfe259140 *R/sources_of_biases_model.R
76a94b69391762eb004b6b577a1bd3c4 *R/zzz.R
0ec938ee6c4251c40c662fec6b409606 *README.md
f8a6dc5d75d98607579e37bd30745ddd *build/vignette.rds
615b02653d1847687780ec7c6818df1e *inst/doc/HiCPotts_vignette.R
2ac3384499edcdd28f3d95090f9f0b51 *inst/doc/HiCPotts_vignette.Rmd
10bf8e5bf7b785d97dc724ec1953a764 *inst/doc/HiCPotts_vignette.html
b14d49a78d1b5cb053564e4014d882ef *inst/extdata/BG3_WT_merged_hic_matrix_chr4_100Kb.cool
57c32a850bd959b46b4f83d03962d138 *inst/extdata/DNaseI_BG3_gr_chr4.bedGraph
0bd3f20c51ff156b1ba70c24af4ad403 *inst/extdata/dm3ToDm6_chr4_only.chain
c3364acd3f1d21dfaf89bb58e81b5725 *inst/extdata/dm6_TEs_chr4.gtf
e408855fd9d9c7a0c1ee6d84516d2c71 *inst/extdata/test_data2.csv
1b85cc85f991d2bb2aa61dad1ee1012d *inst/scripts
756c9a47f3eb5dc01d078c25002764e7 *man/HiCPotts-package.Rd
a732a085c4429fd046bf949265a9ba1b *man/Neighbours_combined.Rd
4b9ddc5fc2ca6fad73b9f58a0775cfa0 *man/compute_HMRFHiC_probabilities.Rd
a8fe55deb2a9dd5109c566f392ab9367 *man/gamma_prior_value.Rd
797a50fb3306aca911436edf86e6ffc0 *man/get_data.Rd
efcd4aa63be4a83cb5fb3860c180c99e *man/likelihood_combined.Rd
e26a357a685914b41413bfe877e46afc *man/likelihood_gamma.Rd
c43b2ba302df5198125ec5ea8bb37edf *man/posterior_combined.Rd
a653847e9c89799dc7262305ae240c56 *man/pred_combined.Rd
265b55fd408552116ab0843b4265bd29 *man/prior_combined.Rd
1af47339f51018aef5f950b9e03670c0 *man/process_data.Rd
5c00544e8c94aa44527cf6944179c9b4 *man/proposaldensity_combined.Rd
5eab5786b8a94c9263af0a086f1f067a *man/proposalfunction.Rd
5fd63e884b9b8d0c3fb53b3ab789deda *man/pz_123.Rd
9ad999023de48ff2408803ae4aa07f38 *man/run_chain_betas.Rd
b68254ee533160fb5ee463730b2c18ac *man/run_metropolis_MCMC_betas.Rd
b4ebdbf3afa40274e168132988a4fb08 *man/size_prior.Rd
90b6a61fd6b9aa72c0a74984c57d3e82 *src/MCMC_chain.cpp
301ab2446de107dba661633a148661bb *src/Makevars
4cf3c01885bfe41fd57c4934b6b9a675 *src/Neighbours_function.cpp
1902c1aea8a590eb1edb5e15ef0d49e1 *src/RcppExports.cpp
6c7b788a759f2660213ed7f990614bab *src/potts_posterior.cpp
34acb29ea8e2d5737c8938922e5f31e0 *tests/testthat.R
9dab18155dcda454b4eb60639379311a *tests/testthat/test-RcppExports.R
b7f076cda5324311fe6b5bfb63371a0e *tests/testthat/test-compute_probabilities.R
54c7b9bbdf78ccca45bda8f83bba8854 *tests/testthat/test-likelihood.R
f1315cf5bdff547da454078dd65189c5 *tests/testthat/test-likelihood_potts.R
16fdcde72e950721bcb2f1d345618931 *tests/testthat/test-neighbours.R
149f624798b9f763e6827269f2bcc0ed *tests/testthat/test-posterior.R
bca877f2c076f5020a6fc91a92ea5355 *tests/testthat/test-posterior_density.R
618c6804cb593e2b19270b3aedd1ba0d *tests/testthat/test-prepare_data.R
555e39e6467a7bd9f033c7a7213cdcdc *tests/testthat/test-prior_modelling.R
5162f7987fa0a8d6048cea5d11a9484a *tests/testthat/test-prior_modelling_size_NB_ZINB.R
4e5625bebbd410f5f4e70c2475e9a518 *tests/testthat/test-prior_potts.R
e4437a607416d730164d03ad3f981cdb *tests/testthat/test-process_data.R
d712854d43fec5038a3c65905ce5f21a *tests/testthat/test-proposal_potts.R
da4680ef0c5c436d94e4d5d1f75b3c1b *tests/testthat/test-pz_123.R
7d4877c23d279010b246c984be8809e5 *tests/testthat/test-run_chain.R
97569662b74811920c2f1153e58133db *tests/testthat/test-sources_of_biases_model.R
2ac3384499edcdd28f3d95090f9f0b51 *vignettes/HiCPotts_vignette.Rmd
