2d5c7305e989f98638b8ad1f3288a1fe *DESCRIPTION
7cf2ec58168bcfae309d5f19533c57c4 *NAMESPACE
4bc0616073bcb2613f0ef020e60cb550 *NEWS.md
5a9646d0c6e18e5fe649f122a4295dea *R/IRWLS.R
508a67818a8bca115193355791568544 *R/RCTD_helper.R
2fc8842180c26b566e7146a5089a3ce1 *R/Reference.R
aa83b695e72f1cb6227de40c38e2ee90 *R/SpatialRNA.R
8677c80d7bd6778fae287949264e6535 *R/cell_type_info.R
bd0e6cc4aac905b61caba7e5c38fd667 *R/classes.R
2d45c5ade0e3dbca8fc8002d577099a0 *R/create_RCTD.R
2356e1f9b2a095f5b4f9bb89474f8464 *R/data.R
d4af678f43bc31c5416e327af3eb5b68 *R/de_genes.R
ceb92d49d3e868f13573e384f8ec4adb *R/matrix_loading.R
348df909b6e7f73a2c8a446475ab7eaf *R/platform_effect_normalization.R
258af9a73b1a167f66570854a707c059 *R/plotting.R
a185cca9de04df56e258f205e55ddf2f *R/post_processing.R
9d039d2590f59a0af112f2c9e7a58ec6 *R/prob_model.R
29cf1e030f5d734d2af2aa46e12afdf5 *R/process_beads.R
127d6afef7274c2d890733e31260b99e *R/run_RCTD.R
4cea298316f593064ecb92c179a64d1b *R/utils.R
b9362c48a0941f94d7a0083d011308b3 *README.md
1cf767d6a123be5f06b576fa8d86d301 *build/vignette.rds
67c8fc8ad4f4b7f8c9851107fe7e2ff2 *data/rctdSim.rda
c7fbe37fb5b201e6fbcd2adc64acfafc *inst/CITATION
c9077b9c9083128aee03dc9f137e8066 *inst/doc/rctd-tutorial.R
8ce21164886f43e78f215a2698887dd1 *inst/doc/rctd-tutorial.Rmd
5622a537c161512d1a455af46435520c *inst/doc/rctd-tutorial.html
cb1fc1e4bced4ba826c22accb2048209 *inst/extdata/X_vals.rds
b2f6749a09426f043dddacae1203c33f *man/RctdConfig-class.Rd
68ddc9b0995aa91cf48a7a891a442400 *man/Reference-class.Rd
d67bfbac49078b74f89cd983ab67a48c *man/SpatialRNA-class.Rd
2d329b0011a1a7423c037f34623c80cd *man/SpatialRNA.Rd
82bf3fd10c85b4d45f266f13c9d83a92 *man/cache_Q_all.Rd
4e03792f2b953ad7fbdaf39da7f73cd6 *man/cell_type_info-set.Rd
68356b35340322598ff225bcdf9de4d0 *man/cell_type_info.Rd
6ae038588aaa4da46f106ee784b80be4 *man/cell_types-set.Rd
d9f0b1fcc59f3fbc8d7ec7a1b47f9124 *man/cell_types.Rd
f4e8417c01e20ab5e54da58d100424ba *man/chooseSigmaC.Rd
42c3fcb289173102b9a178b52073b04a *man/computeCellTypeInfo.Rd
f878b946f12f9a25746869085c100932 *man/config-set.Rd
8354cc803e419906108cbc271ed0e4a0 *man/config.Rd
f6bff3a0ca87ca5b85de19d1d76a3586 *man/coords-set.Rd
1f03d19e2486a7551a21a7be4363fca8 *man/coords.Rd
37d6d107ee1d092bbe15ff352dd1a7ba *man/counts-set.Rd
ea2b102eb213d0224072feca2a2f8321 *man/counts.Rd
ac8a6acbf70570e882631f841181d5d6 *man/createCellTypeInfo.Rd
55ff6a433b33b47b325a35deb8c68bee *man/createRCTD.Rd
7f2d723ab6f36213b3be6596ce9d695f *man/createRctdConfig.Rd
d75e09841737fdb6340572d6609ede91 *man/createReference.Rd
b5b3c84c2f902ccf73e1c6186386b0a2 *man/createSpatialRNA.Rd
e796051432751ccb4f654afde7e92950 *man/create_spe_doublet.Rd
cdb0bf3b97acdc6e9b93099d4320a51d *man/create_spe_from_columns.Rd
d767499ff72e9025820d5a2a7954921c *man/create_spe_full.Rd
3182bbcce6aabbe76ecce0502c3da869 *man/create_spe_multi.Rd
3fb9365124527b8fed733bfbc6805a9f *man/filterPixelsAndGetVars.Rd
52e98907b9fa57462cc22450f00dd537 *man/fitBulk.Rd
ec646a33d901ea0a319dbd872dd12d00 *man/fitPixels.Rd
7a7e2afc36315379ef2ebca1270f037e *man/getDeGenes.Rd
9578fefb5e9adadc57b504d31cf89d64 *man/getNormRef.Rd
9be8b4029294d7944d6dbcbf7dd527fb *man/internal_vars-set.Rd
a748d1a4003fbc6e88b69cd5fbf12ca8 *man/internal_vars.Rd
585b2b850dd2a5f3c75fe89c4a839c0a *man/load_Q_all.Rd
5af176794685f43f3a9ba0f713040efe *man/load_SQ_all.Rd
13b9e1b98ffc9f0d975c9d9d393023d0 *man/make_cache.Rd
843288afdb389b412d3ed4de993fe8d3 *man/nUMI-set.Rd
799929f3dcafd927bb4bea3315b26c6f *man/nUMI.Rd
0cb8a9191430eb6a17463ff2eaaf4596 *man/plotAllWeights.Rd
3144fa397953b7decfaf842f95768917 *man/plotCellTypeWeight.Rd
d7a2eec3e95c100541af92cffdca3fb4 *man/process_beads_batch.Rd
a1d03fea0452cbca7c707decf8336d71 *man/rctdSim.Rd
5aa60e085ebe2409ca126eab4ba8b8ee *man/referenceToCellTypeInfo.Rd
24a91ad975373cfc159a5a0461e48213 *man/runRCTD.Rd
47b6b2364f84c44405476eccc5feecdb *man/set_likelihood_vars.Rd
0ccd283e5bbf6c752ada1ee12cf0463a *man/spacexr-package.Rd
5287d987052f59991a1d46e0d0f9db7d *man/spatialRNA-set.Rd
4625f35ee43df2c048610d00830d919d *man/summarizedExperimentToSpatialRNA.Rd
9c97ab061bcbc6b5e1c88bf7b3b41eea *man/url_ok.Rd
e673a2fa5ad5ca1dc8229f6623612638 *tests/testthat.R
b9b1d079e108d3e2fe5937ae5bd276c3 *tests/testthat/_snaps/rctd-simulation.md
e7232b95d7308af67cb47e4ded20ae93 *tests/testthat/test-rctd-simulation.R
8ce21164886f43e78f215a2698887dd1 *vignettes/rctd-tutorial.Rmd
