All modules for which code is available
- lib5c.algorithms.clustering.adjacency
- lib5c.algorithms.clustering.enclave
- lib5c.algorithms.clustering.greedy
- lib5c.algorithms.clustering.knn
- lib5c.algorithms.clustering.quasicontiguity
- lib5c.algorithms.clustering.util
- lib5c.algorithms.clustering.valley
- lib5c.algorithms.convergency
- lib5c.algorithms.correlation
- lib5c.algorithms.determine_bins
- lib5c.algorithms.donut_filters
- lib5c.algorithms.enrichment
- lib5c.algorithms.expected
- lib5c.algorithms.express
- lib5c.algorithms.filtering.bin_bin_filtering
- lib5c.algorithms.filtering.filter_functions
- lib5c.algorithms.filtering.fragment_bin_filtering
- lib5c.algorithms.filtering.fragment_fragment_filtering
- lib5c.algorithms.filtering.unsmoothable_columns
- lib5c.algorithms.filtering.util
- lib5c.algorithms.knight_ruiz
- lib5c.algorithms.outliers
- lib5c.algorithms.pca
- lib5c.algorithms.qnorm
- lib5c.algorithms.spline_normalization
- lib5c.algorithms.thresholding
- lib5c.algorithms.trimming
- lib5c.algorithms.variance.combined
- lib5c.algorithms.variance.cross_rep
- lib5c.algorithms.variance.deviation
- lib5c.algorithms.variance.estimate_variance
- lib5c.algorithms.variance.local
- lib5c.algorithms.variance.lognorm_dispersion
- lib5c.algorithms.variance.mle
- lib5c.algorithms.variance.nbinom_dispersion
- lib5c.contrib.iced.balancing
- lib5c.contrib.interlap.util
- lib5c.contrib.luigi.config
- lib5c.contrib.luigi.pipeline
- lib5c.contrib.luigi.tasks
- lib5c.contrib.pybigwig.bigwig
- lib5c.core.interactions
- lib5c.core.loci
- lib5c.core.mixins
- lib5c.operators.base
- lib5c.operators.modeling
- lib5c.operators.qnorm
- lib5c.operators.standardization
- lib5c.operators.trimming
- lib5c.parsers.bed
- lib5c.parsers.bias
- lib5c.parsers.config
- lib5c.parsers.counts
- lib5c.parsers.genes
- lib5c.parsers.hic
- lib5c.parsers.loops
- lib5c.parsers.primer_names
- lib5c.parsers.primers
- lib5c.parsers.scaled
- lib5c.parsers.table
- lib5c.parsers.util
- lib5c.plotters.asymmetric_colormap
- lib5c.plotters.bias_heatmaps
- lib5c.plotters.boxplots
- lib5c.plotters.clustering
- lib5c.plotters.colormaps
- lib5c.plotters.convergency
- lib5c.plotters.correlation
- lib5c.plotters.curve_fits
- lib5c.plotters.distance_dependence
- lib5c.plotters.distribution
- lib5c.plotters.enrichment
- lib5c.plotters.expected
- lib5c.plotters.extendable.base_extendable_heatmap
- lib5c.plotters.extendable.bed_extendable_heatmap
- lib5c.plotters.extendable.chipseq_extendable_heatmap
- lib5c.plotters.extendable.cluster_extendable_heatmap
- lib5c.plotters.extendable.domain_extendable_heatmap
- lib5c.plotters.extendable.extendable_figure
- lib5c.plotters.extendable.extendable_heatmap
- lib5c.plotters.extendable.gene_extendable_heatmap
- lib5c.plotters.extendable.legend_extendable_heatmap
- lib5c.plotters.extendable.motif_extendable_heatmap
- lib5c.plotters.extendable.rectangle_extendable_heatmap
- lib5c.plotters.extendable.ruler_extendable_heatmap
- lib5c.plotters.extendable.snp_extendable_heatmap
- lib5c.plotters.fits
- lib5c.plotters.heatmap
- lib5c.plotters.matrix
- lib5c.plotters.pca
- lib5c.plotters.queried_counts_heatmap
- lib5c.plotters.scatter
- lib5c.plotters.splines
- lib5c.plotters.variance
- lib5c.structures.dataset
- lib5c.tools.bias_heatmap
- lib5c.tools.bin
- lib5c.tools.boxplot
- lib5c.tools.colorscale
- lib5c.tools.convergency
- lib5c.tools.correlation
- lib5c.tools.dd_curve
- lib5c.tools.determine_bins
- lib5c.tools.distribution
- lib5c.tools.divide
- lib5c.tools.enrichment
- lib5c.tools.expected
- lib5c.tools.express
- lib5c.tools.heatmap
- lib5c.tools.helpers
- lib5c.tools.hic_extract
- lib5c.tools.iced
- lib5c.tools.interaction_score
- lib5c.tools.kr
- lib5c.tools.lib5c_toolbox
- lib5c.tools.log
- lib5c.tools.outliers
- lib5c.tools.pca
- lib5c.tools.pipeline
- lib5c.tools.pvalue_histogram
- lib5c.tools.pvalues
- lib5c.tools.qnorm
- lib5c.tools.qvalues
- lib5c.tools.remove
- lib5c.tools.smooth
- lib5c.tools.spline
- lib5c.tools.subtract
- lib5c.tools.threshold
- lib5c.tools.trim
- lib5c.tools.variance
- lib5c.tools.visualize_fits
- lib5c.tools.visualize_splines
- lib5c.tools.visualize_variance
- lib5c.util.annotationmap
- lib5c.util.ast_eval
- lib5c.util.bed
- lib5c.util.bedgraph
- lib5c.util.config
- lib5c.util.counts
- lib5c.util.counts_superdict
- lib5c.util.demo_data
- lib5c.util.dictionaries
- lib5c.util.distributions
- lib5c.util.donut
- lib5c.util.grouping
- lib5c.util.lowess
- lib5c.util.lru_cache
- lib5c.util.mathematics
- lib5c.util.metrics
- lib5c.util.optimization
- lib5c.util.parallelization
- lib5c.util.plotting
- lib5c.util.pretty_decorator
- lib5c.util.primers
- lib5c.util.sampling
- lib5c.util.scales
- lib5c.util.slicing
- lib5c.util.sorting
- lib5c.util.statistics
- lib5c.util.stratification
- lib5c.util.system
- lib5c.util.table
- lib5c.writers.bedgraph
- lib5c.writers.bias
- lib5c.writers.config
- lib5c.writers.correlation
- lib5c.writers.counts
- lib5c.writers.hic
- lib5c.writers.pca
- lib5c.writers.primers
- lib5c.writers.table
- lib5c.writers.wustl
- luigi.parameter