Files in davismcc/cardelino
Clone Identification from Single Cell Data
.Rbuildignore
.github/.gitignore
.github/CODE_OF_CONDUCT.md
.github/ISSUE_TEMPLATE/issue_template.md
.github/workflows/R-CMD-check.yaml
.gitignore
DESCRIPTION
NAMESPACE
NEWS.md
R/assessment.R
R/binomial_models.R
R/clone_id.R
R/data_info.R
R/plotting.R
R/read_data.R
R/reads_simulator.R
R/tree_utils.R
README.md
data/config_all.RData
data/example_donor.RData
data/simulation_input.RData
inst/CITATION
inst/README.md
inst/cardelino_image_attribution.txt
inst/cardelino_med.jpg
inst/cardelino_sticker.png
inst/extdata/canopy_results.coveraged.rds
inst/extdata/cellSNP.cells.vcf.gz
inst/extdata/cells.donorid.vcf.gz
inst/extdata/donors.donorid.vcf.gz
inst/extdata/passed_ad.mtx
inst/extdata/passed_dp.mtx
inst/extdata/passed_variant_names.txt
man/A_clone.Rd
man/A_germline.Rd
man/Config_all.Rd
man/D_clone.Rd
man/D_germline.Rd
man/D_input.Rd
man/Geweke_Z.Rd
man/assign_cells_to_clones.Rd
man/assign_scores.Rd
man/binaryPRC.Rd
man/binaryROC.Rd
man/clone_id.Rd
man/colMatch.Rd
man/devianceIC.Rd
man/donor_read_simulator.Rd
man/get_logLik.Rd
man/get_snp_matrices.Rd
man/get_tree.Rd
man/heat_matrix.Rd
man/heatmap.theme.Rd
man/load_GT_vcf.Rd
man/load_cellSNP_vcf.Rd
man/mixBinom.Rd
man/mtx_to_df.Rd
man/multiPRC.Rd
man/plot_config_diffs.Rd
man/plot_tree.Rd
man/predMixBinom.Rd
man/prob_heatmap.Rd
man/pub.theme.Rd
man/read_vcf.Rd
man/rowArgmax.Rd
man/rowMax.Rd
man/sample_seq_depth.Rd
man/sample_tree_SNV.Rd
man/sim_read_count.Rd
man/tree.Rd
man/tree_3clone.Rd
man/tree_4clone.Rd
man/tree_5clone.Rd
man/vc_heatmap.Rd
tests/testthat.R
tests/testthat/test-clone_id.R
tests/testthat/test-misc.R
tests/testthat/test-plotting.R
tests/testthat/test-simulator.R
vignettes/vignette-cloneid.Rmd
