Files in anthony-aylward/chenimbalance
Allelic imbalance mapping procedure from Chen et al. A uniform survey of allele-specific binding and expression over 1000-Genomes-Project individuals (2016)
.gitignore
DESCRIPTION
NAMESPACE
R/color_palette.R
R/data.R
R/empirical_allelic_ratio.R
R/graded_weights.R
R/imbalance.R
R/nulldistrib.R
R/optimize.R
R/overdispersion.R
R/plot_distributions.R
R/prob.R
R/weight_by_empirical_counts.R
README.md
chenimbalance.Rproj
data/accb.rda
data/asb.rda
man/accb.Rd
man/alleledb_beta_binomial.Rd
man/asb.Rd
man/bin_according_to_empirical_distribution.Rd
man/bisect.Rd
man/change_counts_into_density.Rd
man/chenimbalance_color_palette.Rd
man/choose_overdispersion_parameter.Rd
man/choose_probability_of_success_parameter.Rd
man/cutoff.Rd
man/empirical_allelic_ratio.Rd
man/fp.Rd
man/graded_weights_for_sse_calculation.Rd
man/nulldistrib.Rd
man/optimize_overdispersion_parameter.Rd
man/optimize_probability_of_success_parameter.Rd
man/parametric_probability_mass.Rd
man/plot_distributions.Rd
man/weight_by_empirical_counts.Rd
man/weight_with_actual_counts_in_empirical.Rd
vignettes/figure/atac_empirical_dist-1.png
vignettes/figure/atac_optimize_parameter-1.png
vignettes/figure/atac_plot_initial_dist-1.png
vignettes/figure/atac_plot_space-1.png
vignettes/figure/ctcf_empirical_dist-1.png
vignettes/figure/ctcf_optimize_parameter-1.png
vignettes/figure/ctcf_plot_initial_dist-1.png
vignettes/figure/ctcf_plot_space-1.png
vignettes/figure/dnase_empirical_dist-1.png
vignettes/figure/dnase_optimize_parameter-1.png
vignettes/figure/dnase_plot_initial_dist-1.png
vignettes/figure/dnase_plot_space-1.png
vignettes/figure/npbin_atac_estimated_null-1.png
vignettes/figure/npbin_ctcf_estimated_null-1.png
vignettes/figure/npbin_dnase_estimated_null-1.png
vignettes/figure/overdisp_empirical_dist-1.png
vignettes/figure/overdisp_optimize_parameter-1.png
vignettes/figure/overdisp_plot_initial_dist-1.png
vignettes/figure/overdisp_plot_space-1.png
vignettes/figure/unnamed-chunk-10-1.png
vignettes/figure/unnamed-chunk-2-1.png
vignettes/figure/unnamed-chunk-3-1.png
vignettes/figure/unnamed-chunk-4-1.png
vignettes/figure/unnamed-chunk-5-1.png
vignettes/figure/unnamed-chunk-6-1.png
vignettes/figure/unnamed-chunk-8-1.png
vignettes/imbalance.Rmd
vignettes/imbalance.md
vignettes/npbin-atac.Rmd
vignettes/npbin-atac.md
vignettes/npbin-ctcf.Rmd
vignettes/npbin-ctcf.md
vignettes/npbin-dnase.Rmd
vignettes/npbin-dnase.md
vignettes/overdispersion.Rmd
vignettes/overdispersion.md
vignettes/overdispersion.pdf
vignettes/prob-test.Rmd
