Files in kgori/sigfit
Flexible Bayesian inference of mutational signatures
.Rbuildignore
.gitignore
.travis.yml
CHANGELOG
DESCRIPTION
LICENSE
NAMESPACE
R/data.R
R/sigfit-package.R
R/sigfit_estimation.R
R/sigfit_plotting.R
R/sigfit_utility.R
R/stanmodels.R
README.md
configure
configure.win
data/cosmic_signatures_doublet_v3.2.RData
data/cosmic_signatures_indel_v3.2.RData
data/cosmic_signatures_strand_v3.RData
data/cosmic_signatures_v2.RData
data/cosmic_signatures_v3.2.RData
data/cosmic_signatures_v3.RData
data/counts_119breast.RData
data/counts_119breast_strand.RData
data/counts_21breast.RData
data/counts_88liver.RData
data/counts_88liver_strand.RData
data/methylation_27normal.RData
data/methylation_50breast.RData
data/sigfit_vignette_data.RData
data/variants_119breast.RData
data/variants_119breast_strand.RData
data/variants_21breast.RData
data/variants_88liver.RData
data/variants_88liver_strand.RData
doc/sigfit_vignette.R
doc/sigfit_vignette.Rmd
doc/sigfit_vignette.html
inst/CITATION
inst/include/stan_meta_header.hpp
inst/stan/include/common_functions.stan
inst/stan/include/license.stan
inst/stan/sigfit_ext.stan
inst/stan/sigfit_fit.stan
inst/stan/sigfit_fitext.stan
logo.png
man/build_catalogues.Rd
man/build_opps_matrix.Rd
man/calculate_gof.Rd
man/convert_signatures.Rd
man/cosine_sim.Rd
man/cosmic_signatures_doublet_v3.2.Rd
man/cosmic_signatures_indel_v3.2.Rd
man/cosmic_signatures_strand_v3.Rd
man/cosmic_signatures_v2.Rd
man/cosmic_signatures_v3.2.Rd
man/cosmic_signatures_v3.Rd
man/default_sig_palette.Rd
man/extract_signatures.Rd
man/extract_signatures_initialiser.Rd
man/fetch_cosmic_data.Rd
man/fit_extract_signatures.Rd
man/fit_signatures.Rd
man/get_initializer_list.Rd
man/get_loglik.Rd
man/get_reconstructions.Rd
man/human_trinuc_freqs.Rd
man/l2_norm.Rd
man/letterwrap.Rd
man/make_colors.Rd
man/match_signatures.Rd
man/mut_types.Rd
man/plot_all.Rd
man/plot_exposures.Rd
man/plot_gof.Rd
man/plot_ppc.Rd
man/plot_reconstruction.Rd
man/plot_spectrum.Rd
man/plot_spectrum_dbs.Rd
man/plot_spectrum_generic.Rd
man/plot_spectrum_id.Rd
man/plot_spectrum_sbs.Rd
man/plot_spectrum_tsw.Rd
man/remove_zeros_.Rd
man/retrieve_pars.Rd
man/rev_comp.Rd
man/sigfit-package.Rd
man/simulate_ppc.Rd
man/stan_models.Rd
man/to_matrix.Rd
src/Makevars
src/Makevars.win
vignettes/sigfit_vignette.Rmd
