39a028ce23e6e7469663e4ed1432116c *DESCRIPTION
31c0040226c13fb6974da47aaae69c6d *NAMESPACE
b56387e167723759a1a2593cebefb56f *R/assessment.R
08fb58c177f86ee013b4488acdc33abf *R/binomial_models.R
c71caba4b61b56707e0d109b5d84869b *R/clone_id.R
04624fc5a854a33f79533c6cbbcf7b8f *R/data_info.R
e5008bf58b0320de4a374796c88bd752 *R/plotting.R
2b8d1227ea3a95d9da872193185c183b *R/read_data.R
5a457d4f89afc1b4d7204f97337a257d *R/reads_simulator.R
4f3314bd56c65ec2afa6e5392c903b9b *R/tree_utils.R
f0daf5dbbb9cb839be3952a261e5011c *README.md
9b841424cb6680352a5ec492673ee41c *build/vignette.rds
b2bbf3ee37d9827058269e2df363f0d6 *data/config_all.RData
9cbb2551f7770d6a86a74402143564f6 *data/example_donor.RData
5d05bf8efb404e51cc776fc8e605b4a7 *data/simulation_input.RData
3a38a79b2ec3a5ad0faa53e90ea32c06 *inst/CITATION
d43d773fc9716d5bfdb9959c4c787d8e *inst/README.md
dc617bf3f9b08ce46529a05d23668b1d *inst/cardelino_image_attribution.txt
678428925e39857bc7280c4e521c65d0 *inst/cardelino_med.jpg
34c9fb4f9a6b98b871fc0a88be29c151 *inst/cardelino_sticker.png
f16bf11e2fd1ab07124466ab52bad77a *inst/doc/vignette-cloneid.R
329bc8b5ba63029acf87eeffb4669bf5 *inst/doc/vignette-cloneid.Rmd
ddbb40a6347bb90c672da25c78f9e69a *inst/doc/vignette-cloneid.html
ae27ed27e729a50f5e1756f26db8c4d5 *inst/extdata/canopy_results.coveraged.rds
8316c821a4be9a0400dcc316d59e985f *inst/extdata/cellSNP.cells.vcf.gz
1dcadd8a9253892c3ea58bcdcfc2d300 *inst/extdata/cells.donorid.vcf.gz
8a3ac4a9e004917fe37a43b150c78a79 *inst/extdata/donors.donorid.vcf.gz
e5fc087d3f3d475e629a05831d03001f *inst/extdata/passed_ad.mtx
3d3e6965392a774cf70288f09d3dfb34 *inst/extdata/passed_dp.mtx
40f6000b3f8c11d19c7e356ebd747ba0 *inst/extdata/passed_variant_names.txt
fc8f360d43970f36d42c0921074c6d6f *man/A_clone.Rd
24e2d788a628fb0a671887ed32d97468 *man/A_germline.Rd
f0b0a298a85d08e3f9509c41d0ff8bc3 *man/Config_all.Rd
5e7cd028b9edb6b94f9bf3075123e7cc *man/D_clone.Rd
d7a6199bb0c9c248532dac1a089da35c *man/D_germline.Rd
6f91a2aa9daee084837c05914e3b8342 *man/D_input.Rd
3cc3a4b6bbd328bf5916e3dbedcc4268 *man/Geweke_Z.Rd
177bd38f05f63b95e879bf708922ec1f *man/assign_cells_to_clones.Rd
4b4a589119eddb530bbbdf06e4bc3a05 *man/assign_scores.Rd
86df38de9e1a6cbbc01715bb3281c131 *man/binaryPRC.Rd
d84dd46d65855bfad79d95d82434766c *man/binaryROC.Rd
6b7aa3ef0ea7defdd296b2ca8f446ab3 *man/clone_id.Rd
99e9692b29af0430252cb8a2a4765d98 *man/colMatch.Rd
ac7811d3ddc2b1788825b033bea8e227 *man/devianceIC.Rd
5e82a7900b7db714d3ef828237e3b2b8 *man/donor_read_simulator.Rd
cd7abea10d927d214dec8dd4c6a16392 *man/get_logLik.Rd
39d258789ba207a4826bc6dc93286809 *man/get_snp_matrices.Rd
a21059e2c1cd8197c70967e7d868f19b *man/get_tree.Rd
dff97a82c9f0b4e5d6157d9479b593c1 *man/heat_matrix.Rd
c44bd86005ce7458a156a46a67432a90 *man/heatmap.theme.Rd
1c1cfa7ce61a2cb3359c934dbe90d1b6 *man/load_GT_vcf.Rd
41138fff91a8eb9af9e89c177f1a22d6 *man/load_cellSNP_vcf.Rd
267e7e209f87c13f6253f44655e82426 *man/mixBinom.Rd
01cf8e44c5ae200d3f942a376915c72a *man/mtx_to_df.Rd
348417a6de4d70d6a9a62de76fda0846 *man/multiPRC.Rd
f95c8bd6e3d4684fddd1ffe5ef79e51e *man/plot_config_diffs.Rd
a291ef328bbece3ffffa59948c489dd5 *man/plot_tree.Rd
c173e96364f28f8dc1a567b318f282b9 *man/predMixBinom.Rd
0a752d5f8edd5181e9f21c293fa45080 *man/prob_heatmap.Rd
a724af0f507da3c2497efe2ca72bfb14 *man/pub.theme.Rd
ca8ef1037a61ef75b29a001141f00bee *man/read_vcf.Rd
973bf5ca0d011cf6d3948aeb073dce87 *man/rowArgmax.Rd
c901f2957704782c06b0b06a9d5c4022 *man/rowMax.Rd
d1129d31d4dce5d7fa0c47d074385168 *man/sample_seq_depth.Rd
8b5e828153a718d353721da35906596e *man/sample_tree_SNV.Rd
003fa51bd164c714efa6de45567f93b1 *man/sim_read_count.Rd
fd769ab843603e0b56508ae7faee6b38 *man/tree.Rd
9f344f3e57d04314e453ee08ab97d060 *man/tree_3clone.Rd
2dbaa1147e21686b967ba4a26df04fe5 *man/tree_4clone.Rd
12710443a32d18cd7b839dc4e75edb7f *man/tree_5clone.Rd
062a4d900041e99b20c62c0aefb1aaa8 *man/vc_heatmap.Rd
59375086f0e56c698e92903646e2645b *tests/testthat.R
c0b900e1c25dd9594dbb3c151fb95612 *tests/testthat/test-clone_id.R
3a01dc820aada57bafd63c945d745968 *tests/testthat/test-misc.R
a7f11151ed7594063d7166dfeee8573b *tests/testthat/test-plotting.R
e4a4a0a7be94ce90d0fc8db5ddb0ea2d *tests/testthat/test-simulator.R
329bc8b5ba63029acf87eeffb4669bf5 *vignettes/vignette-cloneid.Rmd
