MANIFEST.in
README.md
setup.cfg
setup.py
versioneer.py
lib5c/__init__.py
lib5c/_version.py
lib5c.egg-info/PKG-INFO
lib5c.egg-info/SOURCES.txt
lib5c.egg-info/dependency_links.txt
lib5c.egg-info/entry_points.txt
lib5c.egg-info/requires.txt
lib5c.egg-info/top_level.txt
lib5c/algorithms/__init__.py
lib5c/algorithms/convergency.py
lib5c/algorithms/correlation.py
lib5c/algorithms/determine_bins.py
lib5c/algorithms/donut_filters.py
lib5c/algorithms/donut_filters_legacy.py
lib5c/algorithms/enrichment.py
lib5c/algorithms/enrichment_legacy.py
lib5c/algorithms/expected.py
lib5c/algorithms/express.py
lib5c/algorithms/knight_ruiz.py
lib5c/algorithms/outliers.py
lib5c/algorithms/pca.py
lib5c/algorithms/qnorm.py
lib5c/algorithms/spline_normalization.py
lib5c/algorithms/thresholding.py
lib5c/algorithms/trimming.py
lib5c/algorithms/clustering/__init__.py
lib5c/algorithms/clustering/adjacency.py
lib5c/algorithms/clustering/enclave.py
lib5c/algorithms/clustering/greedy.py
lib5c/algorithms/clustering/knn.py
lib5c/algorithms/clustering/quasicontiguity.py
lib5c/algorithms/clustering/util.py
lib5c/algorithms/clustering/valley.py
lib5c/algorithms/distributions_legacy/__init__.py
lib5c/algorithms/distributions_legacy/fitting.py
lib5c/algorithms/distributions_legacy/variance.py
lib5c/algorithms/filtering/__init__.py
lib5c/algorithms/filtering/bin_bin_filtering.py
lib5c/algorithms/filtering/filter_functions.py
lib5c/algorithms/filtering/fragment_bin_filtering.py
lib5c/algorithms/filtering/fragment_fragment_filtering.py
lib5c/algorithms/filtering/unsmoothable_columns.py
lib5c/algorithms/filtering/util.py
lib5c/algorithms/variance/__init__.py
lib5c/algorithms/variance/combined.py
lib5c/algorithms/variance/cross_rep.py
lib5c/algorithms/variance/deviation.py
lib5c/algorithms/variance/estimate_variance.py
lib5c/algorithms/variance/local.py
lib5c/algorithms/variance/lognorm_dispersion.py
lib5c/algorithms/variance/mle.py
lib5c/algorithms/variance/nbinom_dispersion.py
lib5c/algorithms/variance_legacy/__init__.py
lib5c/algorithms/variance_legacy/grouping.py
lib5c/algorithms/variance_legacy/mle.py
lib5c/algorithms/variance_legacy/pvalues.py
lib5c/algorithms/variance_legacy/variance.py
lib5c/algorithms/variance_legacy/mvr/__init__.py
lib5c/algorithms/variance_legacy/mvr/apply_mvr.py
lib5c/algorithms/variance_legacy/mvr/log_log.py
lib5c/algorithms/variance_legacy/mvr/obs_over_exp_sample_variance.py
lib5c/contrib/__init__.py
lib5c/contrib/iced/__init__.py
lib5c/contrib/iced/balancing.py
lib5c/contrib/interlap/__init__.py
lib5c/contrib/interlap/util.py
lib5c/contrib/luigi/__init__.py
lib5c/contrib/luigi/config.py
lib5c/contrib/luigi/config_legacy.py
lib5c/contrib/luigi/pipeline.py
lib5c/contrib/luigi/pipeline_legacy.py
lib5c/contrib/luigi/tasks.py
lib5c/contrib/pybigwig/__init__.py
lib5c/contrib/pybigwig/bigwig.py
lib5c/contrib/seaborn/__init__.py
lib5c/contrib/seaborn/heatmap_legacy.py
lib5c/core/__init__.py
lib5c/core/interactions.py
lib5c/core/loci.py
lib5c/core/mixins.py
lib5c/operators/__init__.py
lib5c/operators/base.py
lib5c/operators/modeling.py
lib5c/operators/qnorm.py
lib5c/operators/standardization.py
lib5c/operators/trimming.py
lib5c/parsers/__init__.py
lib5c/parsers/bed.py
lib5c/parsers/bias.py
lib5c/parsers/config.py
lib5c/parsers/counts.py
lib5c/parsers/genes.py
lib5c/parsers/hic.py
lib5c/parsers/loops.py
lib5c/parsers/primer_names.py
lib5c/parsers/primers.py
lib5c/parsers/scaled.py
lib5c/parsers/table.py
lib5c/parsers/util.py
lib5c/plotters/__init__.py
lib5c/plotters/asymmetric_colormap.py
lib5c/plotters/bias_heatmaps.py
lib5c/plotters/boxplots.py
lib5c/plotters/clustering.py
lib5c/plotters/colormaps.py
lib5c/plotters/colorscales.py
lib5c/plotters/convergency.py
lib5c/plotters/correlation.py
lib5c/plotters/curve_fits.py
lib5c/plotters/distance_dependence.py
lib5c/plotters/distribution.py
lib5c/plotters/enrichment.py
lib5c/plotters/expected.py
lib5c/plotters/fits.py
lib5c/plotters/fits_legacy.py
lib5c/plotters/heatmap.py
lib5c/plotters/heatmap_legacy.py
lib5c/plotters/matrix.py
lib5c/plotters/pca.py
lib5c/plotters/queried_counts_heatmap.py
lib5c/plotters/scatter.py
lib5c/plotters/splines.py
lib5c/plotters/variance.py
lib5c/plotters/variance_legacy.py
lib5c/plotters/extendable/__init__.py
lib5c/plotters/extendable/base_extendable_heatmap.py
lib5c/plotters/extendable/bed_extendable_heatmap.py
lib5c/plotters/extendable/chipseq_extendable_heatmap.py
lib5c/plotters/extendable/cluster_extendable_heatmap.py
lib5c/plotters/extendable/domain_extendable_heatmap.py
lib5c/plotters/extendable/extendable_figure.py
lib5c/plotters/extendable/extendable_heatmap.py
lib5c/plotters/extendable/gene_extendable_heatmap.py
lib5c/plotters/extendable/legend_extendable_heatmap.py
lib5c/plotters/extendable/motif_extendable_heatmap.py
lib5c/plotters/extendable/rectangle_extendable_heatmap.py
lib5c/plotters/extendable/ruler_extendable_heatmap.py
lib5c/plotters/extendable/snp_extendable_heatmap.py
lib5c/plotters/gene_tracks/hg18_refseq_genes.gz
lib5c/plotters/gene_tracks/hg19_refseq_genes.gz
lib5c/plotters/gene_tracks/hg38_refseq_genes.gz
lib5c/plotters/gene_tracks/mm10_refseq_genes.gz
lib5c/plotters/gene_tracks/mm9_refseq_genes.gz
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr1.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr10.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr11.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr12.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr13.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr13_random.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr14.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr15.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr16.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr17.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr17_random.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr18.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr19.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr1_random.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr2.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr3.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr4.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr4_random.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr5.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr5_random.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr6.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr7.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr7_random.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr8.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr8_random.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr9.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chr9_random.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chrUn_random.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chrX.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chrX_random.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chrY.bed
lib5c/plotters/gene_tracks/mm9/mm9_refseq_genes_chrY_random.bed
lib5c/structures/__init__.py
lib5c/structures/dataset.py
lib5c/tools/__init__.py
lib5c/tools/bias_heatmap.py
lib5c/tools/bin.py
lib5c/tools/boxplot.py
lib5c/tools/colorscale.py
lib5c/tools/convergency.py
lib5c/tools/correlation.py
lib5c/tools/dd_curve.py
lib5c/tools/determine_bins.py
lib5c/tools/distribution.py
lib5c/tools/divide.py
lib5c/tools/enrichment.py
lib5c/tools/expected.py
lib5c/tools/express.py
lib5c/tools/heatmap.py
lib5c/tools/helpers.py
lib5c/tools/hic_extract.py
lib5c/tools/iced.py
lib5c/tools/interaction_score.py
lib5c/tools/kr.py
lib5c/tools/lib5c_toolbox.py
lib5c/tools/log.py
lib5c/tools/outliers.py
lib5c/tools/parents.py
lib5c/tools/pca.py
lib5c/tools/pipeline.py
lib5c/tools/pvalue_histogram.py
lib5c/tools/pvalues.py
lib5c/tools/pvalues_legacy_one.py
lib5c/tools/pvalues_legacy_two.py
lib5c/tools/qnorm.py
lib5c/tools/qvalues.py
lib5c/tools/remove.py
lib5c/tools/smooth.py
lib5c/tools/spline.py
lib5c/tools/subtract.py
lib5c/tools/threshold.py
lib5c/tools/trim.py
lib5c/tools/variance.py
lib5c/tools/variance_legacy.py
lib5c/tools/visualize_fits.py
lib5c/tools/visualize_fits_legacy.py
lib5c/tools/visualize_splines.py
lib5c/tools/visualize_variance.py
lib5c/tools/visualize_variance_legacy.py
lib5c/tools/visualize_variance_legacy2.py
lib5c/util/__init__.py
lib5c/util/annotationmap.py
lib5c/util/ast_eval.py
lib5c/util/bed.py
lib5c/util/bedgraph.py
lib5c/util/counts.py
lib5c/util/counts_superdict.py
lib5c/util/dictionaries.py
lib5c/util/distributions.py
lib5c/util/donut.py
lib5c/util/grouping.py
lib5c/util/lowess.py
lib5c/util/lru_cache.py
lib5c/util/mathematics.py
lib5c/util/metrics.py
lib5c/util/optimization.py
lib5c/util/parallelization.py
lib5c/util/plotting.py
lib5c/util/pretty_decorator.py
lib5c/util/primers.py
lib5c/util/sampling.py
lib5c/util/scales.py
lib5c/util/slicing.py
lib5c/util/sorting.py
lib5c/util/statistics.py
lib5c/util/stratification.py
lib5c/util/stride_tricks.py
lib5c/util/system.py
lib5c/util/table.py
lib5c/writers/__init__.py
lib5c/writers/bedgraph.py
lib5c/writers/bias.py
lib5c/writers/config.py
lib5c/writers/correlation.py
lib5c/writers/counts.py
lib5c/writers/hic.py
lib5c/writers/pca.py
lib5c/writers/primers.py
lib5c/writers/table.py
lib5c/writers/wustl.py