MANIFEST.in
README.md
setup.py
PolTools.egg-info/PKG-INFO
PolTools.egg-info/SOURCES.txt
PolTools.egg-info/dependency_links.txt
PolTools.egg-info/entry_points.txt
PolTools.egg-info/requires.txt
PolTools.egg-info/top_level.txt
main_programs/TES_fold_change_heatmap.py
main_programs/TES_heatmap.py
main_programs/__init__.py
main_programs/align.py
main_programs/base_distribution.py
main_programs/bigwigs_to_track_hubs.py
main_programs/divergent_pileup_metaplot.py
main_programs/gene_body_fold_change_heatmap.py
main_programs/gene_body_heatmap.py
main_programs/make_regions_file_centered_on_max_tss.py
main_programs/metaplot.py
main_programs/multicoverage.py
main_programs/nucleotide_heatmap.py
main_programs/pausing_distance_distribution_from_maxTSS.py
main_programs/quantify_TES_fold_change_heatmap.py
main_programs/quantify_gene_body_fold_change_heatmap.py
main_programs/read_through_transcription.py
main_programs/region_fold_change_heatmap.py
main_programs/region_heatmap.py
main_programs/sequence_from_region_around_max_tss.py
main_programs/sequence_searches.py
main_programs/tps_distance_per_gene.py
main_programs/truQuant.py
main_programs/tsrFinder.py
main_programs/tsrPicker.py
utils/__init__.py
utils/build_counts_dict.py
utils/check_dependencies.py
utils/constants.py
utils/generate_blacklist_regions_for_gene_body_heatmap.py
utils/get_region_length.py
utils/make_random_filename.py
utils/make_read_end_file.py
utils/make_transcripts_dict.py
utils/nested_multiprocessing_pool.py
utils/print_tab_delimited.py
utils/remove_files.py
utils/tsr_finder_step_four_from_rocky.py
utils/verify_bed_file.py
utils/verify_region_length_is_even.py
utils/bedtools_utils/__init__.py
utils/bedtools_utils/run_bedtools_coverage.py
utils/bedtools_utils/run_bedtools_getfasta.py
utils/bedtools_utils/run_bedtools_subtract.py
utils/heatmap_utils/__init__.py
utils/heatmap_utils/add_matrices.py
utils/heatmap_utils/average_matrix.py
utils/heatmap_utils/generate_heatmap.py
utils/heatmap_utils/get_max_value_from_matrix.py
utils/heatmap_utils/get_min_value_from_matrix.py
utils/heatmap_utils/make_log_two_fold_change_matrix.py
utils/heatmap_utils/scale_matrix.py
utils/heatmap_utils/set_matrix_bounds.py