Augmented interval list (AIList): a novel data structure for efficient genomic interval search
☆23Aug 29, 2022Updated 3 years ago
Alternatives and similar repositories for AIList
Users that are interested in AIList 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 high-performance search engine for large-scale genomic interval datasets☆20Sep 1, 2021Updated 4 years ago
- Augmented Interval Tree implemented in Cython/C☆20Jan 17, 2025Updated last year
- Annotating epigenetic variation among samples with region sets in R☆11Jan 18, 2025Updated last year
- Bedfile perturbation tool☆17Mar 6, 2026Updated last month
- A modular, containerized pipeline for PRO-seq data processing☆11Mar 6, 2026Updated last month
- 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.
- Implicit Interval Tree with Interpolation Index☆42Jul 13, 2022Updated 3 years ago
- Serves a web interface and RESTful API for reference genome assets.☆12Feb 25, 2026Updated last month
- Modular job submitter for arbitrary pipelines or commands.☆26Mar 26, 2026Updated 2 weeks ago
- Reference genome resource manager☆74Mar 6, 2026Updated last month
- Calculate and plot distributions of genomic ranges☆27Apr 23, 2025Updated 11 months ago
- An interactive Shiny web application for genomic interval enrichment analysis using LOLA.☆16Apr 17, 2022Updated 3 years ago
- A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)☆170May 28, 2024Updated last year
- Manager for multi-container computing environments☆26Mar 6, 2026Updated last month
- R package for Methylation-based Inference of Regulatory Activity☆13Apr 9, 2020Updated 6 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Experimental getopt, gzip reader, FASTA/Q parser and interval queries in nim-lang☆31Apr 20, 2020Updated 5 years ago
- A command line program for large scale buffering between piped programs☆17Nov 19, 2021Updated 4 years ago
- horizontal pileup☆16Nov 11, 2022Updated 3 years ago
- A C library for handling bigWig files☆81Jan 17, 2025Updated last year
- Linear-time, low-memory construction of variation graphs☆20Feb 3, 2020Updated 6 years ago
- Simplified R caching for reproducible big data projects☆33Feb 28, 2026Updated last month
- DeeNA Zip (SAM/BAM compression tool)☆13May 25, 2019Updated 6 years ago
- Integrated Variant Caller☆17Mar 15, 2018Updated 8 years ago
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Feb 2, 2021Updated 5 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- NCLS. Basically a static interval-tree that is silly fast for both construction and lookups. Deprecated but maintained.☆223Jul 4, 2025Updated 9 months ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Sep 5, 2022Updated 3 years ago
- Python bindings to spoa☆22Dec 3, 2025Updated 4 months ago
- nimble aligner that will map your reads to the references on a laptop☆11Jun 29, 2017Updated 8 years ago
- Python toolkit for building restartable pipelines☆47Mar 6, 2026Updated last month
- A very fast interval tree data structure☆131Feb 3, 2025Updated last year
- A command line tool (in Kotlin/JVM) for intuitively visualizing BAM alignments. (Currently unmaintained)☆11Jan 7, 2024Updated 2 years ago
- A small, auxiliary index to massively improve parallel fastq parsing☆31Mar 6, 2026Updated last month
- FASTQ compression via boosting Sequence Compression Algorithms using Locally Consistent Encoding☆14Sep 11, 2020Updated 5 years ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Divine: Prioritizing Genes for Rare Mendelian Disease in Whole Exome Sequencing Data☆13Apr 18, 2019Updated 6 years ago
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆18Apr 2, 2020Updated 6 years ago
- Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)☆57Mar 4, 2024Updated 2 years ago
- A red-black self-balancing interval tree☆32Aug 6, 2020Updated 5 years ago
- Filter of Pairwise Alignement☆44Jan 31, 2022Updated 4 years ago
- BigWig and BAM utilities☆103Mar 26, 2024Updated 2 years ago
- SIMD partial order alignment tool/library☆176Sep 21, 2025Updated 6 months ago