ontmont#
- ontmont package
- Submodules
- ontmont.bundle module
- ontmont.cli module
- ontmont.collect module
extract_split_alignments()
find_presence_of_matching_sv()
fix_lower_support_coordinates()
get_breakpoint_support_from_bundle()
get_normalized_sv()
get_svtype()
make_brks_bundle()
make_tumor_sv_table()
map_similar_coordinate_to_higher_rank()
normalize_sv_table()
pull_breakpoints_from_bam_files()
pull_breakpoints_from_reads_in_sv_regions()
pull_sv_supporting_reads_from_bundle()
- ontmont.datatypes module
- ontmont.irs module
align_two_sequences()
calc_distance_score()
calc_pval_bilateral_ir()
calc_pval_holliday()
calc_pval_onesided_ir()
calc_pval_segmental_ir()
get_best_holliday_junctions()
get_best_ir_within_breakpoints()
get_best_ir_within_segment()
get_best_onesided_ir()
get_breakpoint_pair_seq_data()
get_onesided_ir()
is_holliday_junction()
overlaps()
- ontmont.plot module
add_gene_annotations()
add_sv_legend_to_axes()
convert_tupleproxy_to_pyranges()
extract_vaf_from_annotated_sv_table()
fix_coordinate_xticklabels()
fix_yticks_with_integers()
get_chrom_xlims()
get_chromosomes_from_bundle()
get_cn_blocks_for_read_xlim()
get_edgecolor()
get_gene_repr_exons()
get_repr_transcript_id()
get_sv_table_chroms()
get_transcript_exons()
get_unique_sv_with_support()
is_overlap()
make_axes_for_breakpoints()
make_spline_coordinates()
parse_gtf_region()
plot_cn_on_axes()
plot_gene_annotations()
plot_jabba_cn()
plot_quasijabba()
plot_segments_on_axes()
plot_sv_lines_on_cn()
plot_svs_to_cn_segments()
plot_transition_on_axes()
plot_vaf_cn_sv_for_reads()
plot_vaf_on_axes()
- ontmont.process module
- ontmont.utils module
- Module contents