Files in lm687/CompSign
Study of mutational signatures using compositional data analysis (CoDA) techniques
.Rbuildignore
.Rhistory
.gitignore
DESCRIPTION
NAMESPACE
R/.DS_Store
R/.Rapp.history
R/.Rhistory
R/DA_functions.R
R/ROO_functions.R
R/data.R
R/helper_functions.R
README.md
compsign3.png
data/.DS_Store
data/.Rapp.history
data/ABOUT
data/PancEndocrine_signaturesMSE.rda
data/ProstAdenoCA_chrom.rda
data/ProstAdenoCA_trinucleotide.rda
data/obj_multilambda.rda
data/obj_multilambda_parameters.rda
data/res_patient_lambda.rda
data/simplified_object.rda
inst/.DS_Store
inst/extdata/.DS_Store
inst/extdata/roo/.DS_Store
inst/extdata/roo/Panc-Endocrine_signaturesMSE_ROO.RDS
inst/extdata/roo/PancEndocrine_signaturesMSE.RDA
inst/extdata/roo/PancEndocrine_signaturesMSE.RDS
inst/extdata/roo/ProstAdenoCA_chrom.RDA
inst/extdata/roo/ProstAdenoCA_chrom.RDS
man/.Rd2pdf2057/Rd2.tex
man/L_to_cov_wrapper_TMB.Rd
man/createBarplot.Rd
man/give_x_matrix.Rd
man/give_z_matrix.Rd
man/load_PCAWG.Rd
man/modify_dataset.Rd
man/softmax.Rd
man/summary_ROO.txt
man/vector_to_ct_list.Rd
man/wald_TMB_wrapper.Rd
man/wrapper_run_TMB.Rd
src/FE_dirichletmultinomial.cpp
src/FE_dirichletmultinomial_single_lambda.cpp
src/Makefile
src/diagRE_ILR_ME_dirichletmultinomial.cpp
src/diagRE_ME_dirichletmultinomial.cpp
src/diagRE_ME_multinomial.cpp
src/diagRE_dirichletmultinomial_single_lambda.cpp
src/diagREpatientlambda_ME_dirichletmultinomial.cpp
src/fullRE_ME_dirichletmultinomial.cpp
src/fullRE_ME_dirichletmultinomial_onefixedlambda.cpp
src/fullRE_ME_multinomial.cpp
src/fullRE_dirichletmultinomial_single_lambda.cpp
src/fullREpatientlambda_ME_dirichletmultinomial.cpp
src/functions.hpp
src/singleRE_dirichlet_multinomial.cpp
vignettes/.gitignore
vignettes/Compsign.Rmd
vignettes/Compsign_files/figure-gfm/panc-endocrine2-1.png
vignettes/Compsign_files/figure-gfm/patient_dispersion_inference_analysis-1.png
vignettes/Compsign_files/figure-gfm/plot_betas_example-1.png
vignettes/Compsign_files/figure-gfm/signature_extraction-1.png
vignettes/Compsign_files/figure-gfm/simplify_object2-1.png
vignettes/rsconnect/documents/Compsign.Rmd/rpubs.com/rpubs/Document.dcf
vignettes/rsconnect/documents/Compsign.Rmd/rpubs.com/rpubs/Publish Document.dcf
