A simple command-line tool to download data from Joint Genome Institute databases
☆51Jan 19, 2023Updated 3 years ago
Alternatives and similar repositories for jgi-query
Users that are interested in jgi-query 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 quick and easy way to download the genomes/predicted proteins of taxa available in JGI's Genome Portal.☆38Feb 17, 2026Updated 2 months ago
- ☆46Jun 27, 2023Updated 2 years ago
- Find common blocks and differences between DNA sequences☆44Nov 5, 2025Updated 6 months ago
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 6 years ago
- Functional Analysis of Metagenomes by Likelihood Inference☆17Sep 8, 2025Updated 7 months 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.
- Python API for the Interactive Tree of Life (iTOL)☆37Updated this week
- a collection of scripts for organising bacterial genomes by species☆81Mar 18, 2022Updated 4 years ago
- A tool to filter BUSCO output into single-copy gene files for phylogenomics☆13Jul 24, 2024Updated last year
- Repository for Protein-Vec, a protein embedding mixture of experts model☆38Jan 24, 2024Updated 2 years ago
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- the Metagenomic test for Presence Or Absence of Pathways☆13Mar 4, 2019Updated 7 years ago
- PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied ann…☆25Feb 25, 2023Updated 3 years ago
- Scripts to generate and analyze afdb clusters☆11Sep 15, 2023Updated 2 years ago
- MetaCompass: Reference-guided Assembly of Metagenomes☆43Apr 13, 2026Updated 3 weeks ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Gupta et al., TaxiBGC: a Taxonomy-guided Approach for Profiling Experimentally Characterized Microbial Biosynthetic Gene Clusters and Sec…☆15May 24, 2023Updated 2 years ago
- Find clustered hits from a BLAST search☆137Jan 16, 2026Updated 3 months ago
- Efficiently read and write sequencing data from Python☆70Oct 12, 2025Updated 6 months ago
- sensitive and precise assembly of short sequencing reads☆167Oct 11, 2024Updated last year
- StrainEst - abundance estimation of strains☆20Jan 17, 2020Updated 6 years ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Jan 9, 2021Updated 5 years ago
- Generate identicons for DNA sequences with Python☆38May 8, 2025Updated 11 months ago
- Code accompanying the publication for compressed graph annotation☆13Feb 14, 2019Updated 7 years ago
- A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.☆12Oct 30, 2023Updated 2 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.
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Feb 26, 2020Updated 6 years ago
- Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.☆40Jul 15, 2019Updated 6 years ago
- UFCG: Universal Fungal Core Genes☆36Jul 29, 2025Updated 9 months ago
- Fast and accurate genomic distances using HyperLogLog☆162Jan 19, 2023Updated 3 years ago
- Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)☆248Apr 15, 2026Updated 2 weeks ago
- ☆21Sep 22, 2022Updated 3 years ago
- Sequence Bloom Trees with All/Some split☆11Oct 30, 2018Updated 7 years ago
- NGSTools☆16Mar 3, 2017Updated 9 years ago
- Fast implementation of the neighbour-joining phylogenetic inference method☆22May 23, 2020Updated 5 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆597Apr 21, 2026Updated 2 weeks ago
- CCTyper: Automatic detection and subtyping of CRISPR-Cas operons☆108Feb 15, 2024Updated 2 years ago
- Searching large collections of sequencing data with genome-scale queries☆17Feb 5, 2026Updated 2 months ago
- Extremely accurate algorithm used to group DNA sequences from microbial communities into operational taxonomic units (proxy for species) …☆14Nov 20, 2018Updated 7 years ago
- ☆75Mar 10, 2024Updated 2 years ago
- benchmarking and containerization of tools for analysis of complex non-clinical metagenomes.☆21Sep 21, 2018Updated 7 years ago
- antiSMASH☆255Mar 24, 2026Updated last month