A powerful toolset for genome arithmetic.
☆143May 28, 2021Updated 5 years ago
Alternatives and similar repositories for bedtools
Users that are interested in bedtools are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Useful FILe and stream Operations☆45Dec 21, 2015Updated 10 years ago
- A Python interface to the BEDTools API using Cython☆28Mar 16, 2011Updated 15 years ago
- bedtools - the swiss army knife for genome arithmetic☆1,045Jun 10, 2026Updated 2 months ago
- Reference-based compression of SRA data☆40Mar 26, 2013Updated 13 years ago
- Rapid Mapping-based Isoform Quantification from RNA-Seq Reads☆127Jun 9, 2022Updated 4 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- python access to UCSC genomes database☆138Aug 27, 2020Updated 6 years ago
- C++ API & command-line toolkit for working with BAM data☆433May 18, 2025Updated last year
- Interactive web-based genome browser.☆229Aug 28, 2019Updated 7 years ago
- This is *NOT* the official repository of samtools.☆49Jun 9, 2017Updated 9 years ago
- R package for DER Finder, a method for differential expression analysis of RNA-seq data☆22Mar 6, 2015Updated 11 years ago
- Infrastructure code to support DNA pipeline☆38May 5, 2015Updated 11 years ago
- Basic operations on the space of numerical functions defined on the genome using lazy evaluators for flexibility and efficiency☆154May 31, 2026Updated 3 months ago
- Blacktie: a streamlined interface to the popular tophat/cufflinks RNA-seq pipeline☆26Oct 5, 2015Updated 10 years ago
- Seqnature: incorporate SNPs and Indels into a reference genome☆16Sep 6, 2016Updated 9 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.
- vcf file manipulation☆22Jul 9, 2015Updated 11 years ago
- pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)☆49Mar 3, 2017Updated 9 years ago
- BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants☆25Mar 17, 2016Updated 10 years ago
- Utilities for Samtools ( http://samtools.sourceforge.net/ )☆18Sep 26, 2011Updated 14 years ago
- The gkno launcher for executing tools or pipelines☆31Jan 17, 2017Updated 9 years ago
- BioLib brings together a set of opensource libraries written in C/C++ and makes them available for all Bio* languages☆38Oct 5, 2010Updated 15 years ago
- Tools for bam file processing☆56Apr 20, 2015Updated 11 years ago
- a lightweight db framework for exploring genetic variation.☆328Apr 28, 2020Updated 6 years ago
- Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")☆330Updated this week
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- SNAPR: a bioinformatics pipeline for efficient and accurate RNA-seq alignment and analysis☆25Apr 7, 2015Updated 11 years ago
- Incubator for useful bioinformatics code, primarily in Python and R☆645Feb 5, 2025Updated last year
- Torrent Mapping Alignment Program☆50Feb 20, 2014Updated 12 years ago
- Provides easy read/write access to genomic tracks☆22Mar 18, 2016Updated 10 years ago
- Genomics database manager☆25Mar 3, 2014Updated 12 years ago
- Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data☆86Aug 25, 2020Updated 6 years ago
- BWK awk modified for biological data☆643Aug 11, 2022Updated 4 years ago
- A simple and performant API for working with many genomic file formats in a consistent fashion☆16Mar 23, 2018Updated 8 years ago
- ☆17Sep 24, 2013Updated 12 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- python wrapper to dpryan79's bigwig library using cffi☆19May 13, 2016Updated 10 years ago
- Generate and process BAM files from Illumina sequencing instrument files☆23Feb 25, 2016Updated 10 years ago
- CloudBioLinux: configure virtual (or real) machines with tools for biological analyses☆257Dec 19, 2023Updated 2 years ago
- Transcript quantification import for modular pipelines☆144Apr 15, 2026Updated 4 months ago
- A configurable de novo assembly pipeline☆30Jun 29, 2016Updated 10 years ago
- Python graph database framework for bioinformatics☆96Nov 27, 2021Updated 4 years ago
- perform genotype-phenotype-association tests on a VCF with logistic regression.☆20Dec 15, 2015Updated 10 years ago