API for cicero
Precict cis-co-accessibility from single-cell chromatin accessibility data

Global functions
CustomTrack Source code
agg_cells Source code
aggregate_by_cell_bin Man page Source code
aggregate_nearby_peaks Man page Source code
annotate_cds_by_site Man page Source code
assemble_connections Man page Source code
build_composite_gene_activity_matrix Source code
build_gene_activity_matrix Man page Source code
calc_dist_matrix Source code
cell_data Man page
cicero Man page
cicero-package Man page
cicero_data Man page
compare_connections Man page Source code
df_for_coords Man page Source code
estimate_distance_parameter Man page Source code
find_ccan_cutoff Source code
find_distance_parameter Source code
find_overlapping_ccans Man page Source code
find_overlapping_coordinates Man page Source code
gene_annotation_sample Man page
generate_ccans Man page Source code
generate_cicero_models Man page Source code
generate_plotting_subset Source code
generate_windows Source code
get_colors Source code
get_genomic_range Source code
get_rho_mat Source code
human.hg19.genome Man page
is_chr Source code
is_color Source code
make_atac_cds Man page Source code
make_bin_col Source code
make_ccan_graph Source code
make_cicero_cds Man page Source code
make_gene_model_track Source code
make_peak_track Source code
make_sparse_matrix Man page Source code
monocle_theme_opts Source code
normalize_gene_activities Man page Source code
number_of_ccans Source code
plotBedpe Source code
plot_accessibility_in_pseudotime Man page Source code
plot_connections Man page Source code
plotpair Source code
ranges_for_coords Man page Source code
reconcile Source code
run_cicero Man page Source code
signif_up Source code
sparse_to_datatable Source code
cicero documentation built on Feb. 22, 2019, 2:01 a.m.