Ultrafast interval trees from the kernel. Deprecated in favor of the NCLS.
☆26Apr 8, 2019Updated 7 years ago
Alternatives and similar repositories for kerneltree
Users that are interested in kerneltree are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- NCLS. Basically a static interval-tree that is silly fast for both construction and lookups. Deprecated but maintained.☆223Jul 4, 2025Updated 9 months ago
- Sweep-line algorithm for genomic features. Detect overlaps on large files w/ minimal memory.☆10Sep 13, 2011Updated 14 years ago
- Explore and analyze biological sequence data☆17Aug 1, 2024Updated last year
- a cythonized, extended version of the interval search tree in bx☆30Jun 4, 2019Updated 6 years ago
- python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.☆15Feb 13, 2018Updated 8 years ago
- Deploy open-source AI quickly and easily - Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- 🎯 Generate DNA sequences with specified amino acid, codon, and k-mer frequencies☆17Jan 23, 2023Updated 3 years ago
- Bedfile perturbation tool☆17Mar 6, 2026Updated last month
- Library for visualising genomic features in Python.☆15May 12, 2017Updated 8 years ago
- Experimental getopt, gzip reader, FASTA/Q parser and interval queries in nim-lang☆31Apr 20, 2020Updated 5 years ago
- Python for Command Line Oneliners☆19Jan 5, 2015Updated 11 years ago
- A file watcher written in Rust☆11Dec 1, 2024Updated last year
- Published methods☆15Oct 19, 2016Updated 9 years ago
- Bam to Pandas DataFrame, quickly☆13May 10, 2025Updated 11 months ago
- (DEPRECATED) epic: diffuse domain ChIP-Seq caller based on SICER☆31Nov 21, 2018Updated 7 years ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- LAAVA: Long-read AAV Analysis☆13Dec 9, 2025Updated 4 months ago
- Python-based UCSC genome browser snapshot-taker and gallery-maker☆12May 21, 2024Updated last year
- Lab notebook for people who like the command line.☆11Mar 6, 2026Updated last month
- A lightweight library for working with PAF (Pairwise mApping Format) files☆30May 3, 2022Updated 3 years ago
- pycistarget is a python module to perform motif enrichment analysis in sets of regions with different tools and identify high confidence …☆18Updated this week
- A small, auxiliary index to massively improve parallel fastq parsing☆31Mar 6, 2026Updated last month
- Genomic Association Tester☆35May 2, 2023Updated 2 years ago
- Benchmark structural variant calls against a reference set☆18Jan 26, 2026Updated 2 months ago
- CLI to automate Nextflow pipeline testing☆12Dec 15, 2025Updated 4 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- zsh plugin to list up EC2 instances and ssh login the instances.☆11Apr 10, 2018Updated 8 years ago
- A phase-aware pharmacogenomic diplotyper for PacBio datasets☆20Mar 24, 2026Updated 3 weeks ago
- Butler is a framework for running scientific workflows on public and academic clouds.☆70Feb 10, 2020Updated 6 years ago
- A mutable, self-balancing interval tree. Queries may be by point, by range overlap, or by range containment.☆687Dec 25, 2025Updated 3 months ago
- Pyranges: a Python framework for ultrafast sequence interval operations☆53Updated this week
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆18Apr 2, 2020Updated 6 years ago
- fast, pure-python interval overlap testing☆52Oct 2, 2020Updated 5 years ago
- Split a BAM file by haplotype support☆16Dec 13, 2017Updated 8 years ago
- ☆10Sep 30, 2018Updated 7 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Benchmarking variant calling in polyploids☆15Nov 26, 2021Updated 4 years ago
- Send data via I2C/TWI, using the Wire library.☆12Jan 14, 2017Updated 9 years ago
- Cromwell output organizer☆13May 18, 2021Updated 4 years ago
- edit distance sequence tags and helpers☆12Feb 4, 2021Updated 5 years ago
- Library for indexing VCF files for random access searches by rsID☆17Mar 2, 2026Updated last month
- ☆13Sep 5, 2017Updated 8 years ago
- Ultraperformant reimplementation of SICER☆59Dec 1, 2025Updated 4 months ago