Python graph database framework for bioinformatics
☆96Nov 27, 2021Updated 4 years ago
Alternatives and similar repositories for pygr
Users that are interested in pygr are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- LAAVA: Long-read AAV Analysis☆13Dec 9, 2025Updated 6 months ago
- A Python interface to the BEDTools API using Cython☆28Mar 16, 2011Updated 15 years ago
- Web interface to Amazon Redshift for exploring its data☆19Jun 15, 2016Updated 10 years ago
- A small, auxiliary index to massively improve parallel fastq parsing☆32Mar 6, 2026Updated 3 months ago
- Incubator for useful bioinformatics code, primarily in Python and R☆644Feb 5, 2025Updated last year
- 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.
- A method of assessing sequence complexity based on kmer frequencies☆33Apr 9, 2018Updated 8 years ago
- classification of higher-order structural variants from breakpoint data☆11Jan 8, 2018Updated 8 years ago
- Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")☆330Mar 16, 2025Updated last year
- 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
- Fake genomes, fake sequencing, real insights.☆13Sep 4, 2021Updated 4 years ago
- python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.☆15Feb 13, 2018Updated 8 years ago
- 🎯 Generate DNA sequences with specified amino acid, codon, and k-mer frequencies☆17Jan 23, 2023Updated 3 years ago
- Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.☆13Mar 16, 2026Updated 3 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Extends miniwdl to run workflows on AWS Batch & EFS☆22Feb 5, 2024Updated 2 years ago
- memory mapped multimap, multiset, and implicit interval tree based on an in-place parallel sort☆28Jan 25, 2021Updated 5 years ago
- Bedfile perturbation tool☆17Mar 6, 2026Updated 3 months ago
- Biological Graphic tool in Python☆34May 14, 2020Updated 6 years ago
- WDL plugin for pytest☆49Aug 1, 2023Updated 2 years ago
- Python for Command Line Oneliners☆19Jan 5, 2015Updated 11 years ago
- Genomic Assemblies Merger for NGS☆26Nov 10, 2023Updated 2 years ago
- Bioinformatics in Python☆59Jun 22, 2024Updated 2 years ago
- Import and run CWL workflows on DNAnexus (alpha)☆13Sep 12, 2018Updated 7 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.
- Federated Microblogging Application☆13Sep 7, 2024Updated last year
- The integrated pipeline for Indel detection☆17Apr 29, 2018Updated 8 years ago
- Efficiently read and write sequencing data from Python☆70Oct 12, 2025Updated 8 months ago
- Sample an approximate number of reads from a fastq file without reading the entire file☆11Jun 20, 2017Updated 9 years ago
- Single-pass probabilistic duplicate marking of alignments with a Bloom filter.☆23Aug 7, 2023Updated 2 years ago
- ☆14Jan 20, 2016Updated 10 years ago
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆21Oct 20, 2023Updated 2 years ago
- Integrating influenza antigenic dynamics with molecular evolution☆12May 28, 2015Updated 11 years ago
- A command line program for large scale buffering between piped programs☆17Nov 19, 2021Updated 4 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.
- HGVS variant name parsing and generation☆177Jun 14, 2023Updated 3 years ago
- conda recipes for genomic data☆84Jul 31, 2021Updated 4 years ago
- A platform for matching patient-specific genomic profiles to precision cancer medicine clinical trials☆22Dec 5, 2023Updated 2 years ago
- Location for the LSF DRMAA API originally creaded by FedStage☆20Oct 11, 2023Updated 2 years ago
- phylogenetic analyses informed by deep mutational scanning data☆15Apr 5, 2026Updated 2 months ago
- Convert VCF (Variant Call Format) into TCGA MAF (Mutation Annotation Format)☆15Jul 15, 2016Updated 9 years ago
- Efficient pythonic random access to fasta subsequences☆486Mar 19, 2026Updated 3 months ago