API for TeamMacLean/atacr
Analysing Capture Seq Count Data

Global functions
Est.Depth Man page Source code
as.DGEList Source code
as.data.frame.atacr Man page Source code
as.matrix.atacr Man page Source code
assay_matrix_to_df Man page Source code
average_matrix_by_sample Source code
ay Source code
bayes_t Source code
bootstrap_t Man page Source code
calc_quantiles Man page Source code
check_data Source code
chromosome_coverage Man page Source code
control_window_normalise Man page Source code
control_window_normalise_internal Man page Source code
control_window_scaling_factors Man page Source code
cor.mtest Source code
count_windows_under_threshold Man page Source code
coverage_count_summary Man page Source code
coverage_summary Man page Source code
edgeR_exact Source code
edgeR_multiclass Source code
emm Source code
estimate_GoFs Man page Source code
estimate_bayes_factor Man page Source code
estimate_bayes_factor_multiclass Man page Source code
estimate_fdr Man page Source code
estimate_fdr_multiclass Man page Source code
extract_features_from_gff Man page Source code
find_controls_by_GoF Man page Source code
get_GoF_factors Man page Source code
get_bait_regions_from_gff Man page Source code
get_bait_regions_from_text Man page Source code
get_coverage_in_regions Source code
get_expected_values Man page Source code
get_fc Source code
get_gene_coords Source code
get_mart Source code
get_means Source code
get_scaling_factors Source code
get_sd Source code
get_t Man page Source code
gof Man page Source code
library_size_normalisation Man page Source code
library_size_normalisation_internal Man page Source code
library_size_scaling_factors Man page Source code
load_atac Man page Source code
load_rnaseq Man page Source code
ma_data Man page Source code
ma_plot Man page Source code
make_UpSetR Man page Source code
make_corrplot Man page Source code
make_counts Man page Source code
make_csaw_params Man page Source code
make_params Man page Source code
make_range_names Source code
make_scanBamParam Man page Source code
median_virtual_experiment Man page Source code
meta_summary Source code
names_from_treatment Source code
no_func Source code
normalise_by_window_width Man page Source code
observed_expected_bins Man page Source code
order_by_name Source code
plot.atacr Man page Source code
plot_GoF Man page Source code
plot_count_by_chromosome Man page Source code
plot_counts Man page Source code
print.atacr Man page Source code
qqarb Man page Source code
read_experiment_info Man page Source code
sample_correlation_plot Man page Source code
sample_kmeans_cluster Man page Source code
scale_factor_normalise Man page Source code
scale_normalise Source code
se_contains_only_integers Source code
select_colours Source code
select_comparisons Source code
select_data Man page Source code
sim_counts Man page Man page
simulate_counts Man page Source code
small_counts Man page
summary.atacr Man page Source code
target_count_coverage Man page Source code
target_count_summary Man page Source code
treatment_from_name Source code
treatments Man page Source code
view_gene Man page Source code
windows_below_coverage_threshold_plot Man page Source code
TeamMacLean/atacr documentation built on Nov. 8, 2017, 12:05 a.m.