Crate gtars_genomicdist 

Genomic distribution and statistics for region sets.

This crate provides tools for analyzing the distribution of genomic regions across chromosomes, including:

• Computing summary statistics (min, max, mean, median) for region lengths per chromosome
• Binning genomes into fixed-size windows and counting region overlaps
• Analyzing genomic coverage patterns

Example

use gtars_genomicdist::GenomicIntervalSetStatistics;
use gtars_core::models::RegionSet;

let regions = RegionSet::try_from("input.bed").unwrap();

// Get statistics per chromosome
let stats = regions.chromosome_statistics();

// Get region distribution across 10 bins
let distribution = regions.region_distribution_with_bins(250);

Re-exports

pub use asset::GenomicDistAnnotation;

pub use consensus::ConsensusRegion;

pub use consensus::consensus;

pub use region_set_list_ops::pairwise_jaccard;

pub use region_set_list_ops::RegionSetListOps;

pub use partitions::calc_expected_partitions;

pub use partitions::calc_partitions;

pub use partitions::genome_partition_list;

pub use partitions::ExpectedPartitionResult;

pub use partitions::ExpectedPartitionRow;

pub use partitions::GeneModel;

pub use partitions::PartitionList;

pub use partitions::PartitionResult;

pub use models::Strand;

pub use models::StrandedRegionSet;

pub use signal::calc_summary_signal;

pub use signal::ConditionStats;

pub use signal::SignalMatrix;

pub use signal::SignalSummaryResult;

pub use statistics::GenomicIntervalSetStatistics;

pub use utils::median_abs_distance;

pub use statistics::calc_dinucl_freq;

pub use statistics::calc_gc_content;

pub use statistics::DINUCL_ORDER;

Modules

asset

GenomicDist Annotation (GDA) — binary gene model format.

bed_classifier

BED file format classifier

consensus

Consensus region analysis for multiple region sets.

errors

models

partitions

Genomic partition analysis for region sets.

region_set_list_ops

Batch pairwise Jaccard and indexed pair operations on collections of region sets (RegionSetList).

signal

Signal matrix overlap and summary statistics.

statistics

GenomicDistributions functions and extensions for RegionSet module

stranded_region_set

Strand-aware set operations on StrandedRegionSet.

utils

Structs

SortedRegionSet

A RegionSet whose regions are sorted by (chr, start).

Enums

CoordinateMode

Coordinate convention for genomic intervals.

Functions

chrom_karyotype_key

Returns a sort key that orders chromosome names karyotypically: numeric (1, 2, …, 22) → X → Y → M/MT → everything else alphabetically.