fast, pure-python interval overlap testing
☆52Oct 2, 2020Updated 6 years ago
Alternatives and similar repositories for interlap
Users that are interested in interlap are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- a wee tool for random access into BGZF files.☆86May 10, 2018Updated 8 years ago
- pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)☆49Mar 3, 2017Updated 9 years ago
- DEPRECATED Lightweight bioinformatics pipeline tools using iPython☆14Dec 11, 2015Updated 10 years ago
- Streaming relation (overlap, distance, KNN) of (any number of) sorted genomic interval sets. #golang☆46Jun 16, 2026Updated 4 months ago
- python wrapper to dpryan79's bigwig library using cffi☆18May 13, 2016Updated 10 years ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- SNAPR: a bioinformatics pipeline for efficient and accurate RNA-seq alignment and analysis☆25Apr 7, 2015Updated 11 years ago
- perform genotype-phenotype-association tests on a VCF with logistic regression.☆20Dec 15, 2015Updated 10 years ago
- Rapid competitive read demulitplexer. Made with tries.☆23Oct 14, 2026Updated 3 weeks ago
- example of shiny plots which react to clicking on points☆11Jun 18, 2015Updated 11 years ago
- Normalization and difference calling for Next Generation Sequencing (NGS) data via joint multinomial modeling.☆11May 21, 2026Updated 5 months ago
- Wrappers around NGS peak callers to both call peaks and run IDR☆11Aug 2, 2013Updated 13 years ago
- Blacktie: a streamlined interface to the popular tophat/cufflinks RNA-seq pipeline☆26Oct 5, 2015Updated 11 years ago
- Building the constrained coding regions (CCR) model☆16Dec 19, 2018Updated 7 years ago
- a cythonized, extended version of the interval search tree in bx☆30Jun 4, 2019Updated 7 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- a short graduate population biology course☆13Feb 22, 2023Updated 3 years ago
- Fast Structural Variation Detection Toolbox☆19Feb 16, 2015Updated 11 years ago
- Python package for managing sessions in the UCSC Genome Browser.☆11Mar 19, 2015Updated 11 years ago
- A tool to identify, annotate and visualise splicing switch events from RNA-seq data☆14Aug 26, 2015Updated 11 years ago
- Simple tool to verticalize text delimited files.☆36May 6, 2024Updated 2 years ago
- Modeling and correcting fragment sequence bias for RNA-seq☆24Jun 4, 2024Updated 2 years ago
- PySeqArray: data manipulation of whole-genome sequencing variants with SeqArray files in Python (pre-release version)☆14Updated this week
- NCLS. Basically a static interval-tree that is silly fast for both construction and lookups. Deprecated but maintained.☆222Oct 26, 2026Updated last week
- Retrieve data in genomic intervals with a Python interface for tabix.☆83Aug 10, 2017Updated 9 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- significance testing over interval overlaps☆30Jul 11, 2020Updated 6 years ago
- python stuff I use☆21Feb 16, 2026Updated 8 months ago
- conda recipes for genomic data☆84Jul 31, 2021Updated 5 years ago
- Shape analysis of high-throughput data☆19Feb 24, 2016Updated 10 years ago
- python access to UCSC genomes database☆138Aug 27, 2020Updated 6 years ago
- A suite of javascript apps for visualizing sequencing data☆12Nov 18, 2013Updated 12 years ago
- Shimmer is a software package for the characterization of genetic differences between two very similar samples, e.g., a tumor sample and …☆12Jan 12, 2023Updated 3 years ago
- Sample an approximate number of reads from a fastq file without reading the entire file☆11Jun 20, 2017Updated 9 years ago
- XL-mHG: A Semiparametric Test for Enrichment in Ranked Lists.☆13Jan 19, 2023Updated 3 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Write-once-read-many table for large datasets.☆27Oct 5, 2023Updated 3 years ago
- simple library for dealing with SAM cigar strings☆41Feb 20, 2021Updated 5 years ago
- Simple interval class for fast fasta access☆10Jun 18, 2012Updated 14 years ago
- normalize, left-align, trim, validate and clean VCF files☆20Jul 22, 2015Updated 11 years ago
- Genomics database manager☆25Mar 3, 2014Updated 12 years ago
- Utility programs to trim or sort Illumina reads with adapter sequences☆15Jul 23, 2013Updated 13 years ago
- a string to graph aligner☆41Jul 5, 2016Updated 10 years ago