Growth Rate Index (GRiD) measures bacterial growth rate from reference genomes (including draft quality genomes) and metagenomic bins at ultra-low sequencing coverage (> 0.2x).
☆32May 22, 2020Updated 6 years ago
Alternatives and similar repositories for GRiD
Users that are interested in GRiD are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- scripts for estimating bacteria replication rates based on population genome copy number variation☆75Dec 28, 2019Updated 6 years ago
- Strain-level Metagenomic Estimation of Growth rate (SMEG) measures growth rates of microbial strains from complex metagenomic dataset☆20May 22, 2020Updated 6 years ago
- From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)☆22Jul 8, 2024Updated 2 years ago
- Pathway-based and phylogenetically adjusted quantification of competition and cooperation between microbial species☆19Mar 17, 2021Updated 5 years ago
- ☆56Mar 29, 2026Updated 3 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- MEGARes and AmrPlusPlus - A comprehensive database of antimicrobial resistance genes and user-friendly pipeline for analysis of high-thro…☆26Nov 14, 2022Updated 3 years ago
- This is a comprehensive database for fast and accurately analyzing the phosphorus cycling genes.☆37Jul 12, 2022Updated 4 years ago
- Accurate and robust inference of microbial growth dynamics from metagenomic sequencing☆20May 11, 2022Updated 4 years ago
- Scripts for calculating features and regression of prokaryote OGT☆25Feb 13, 2024Updated 2 years ago
- ☆23Apr 3, 2023Updated 3 years ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆15Aug 26, 2024Updated last year
- Python package to study microbial communities using metabolic modeling.☆134Updated this week
- A scalable high-throughput metabolic and biogeochemical functional trait profiler☆227Mar 24, 2026Updated 3 months ago
- Phasing for metagenomics using PacBio long reads☆16Jul 14, 2021Updated 5 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆68Aug 12, 2019Updated 6 years ago
- ☆14Jun 23, 2026Updated 3 weeks ago
- Toolbox for comparative genomics of MAGs☆91Apr 28, 2026Updated 2 months ago
- Mapping-Assisted Targeted-Assembly for Metagenomics☆27Mar 28, 2025Updated last year
- statdivlab's teaching materials for STAMPS @ the MBL in 2019☆11Jul 28, 2019Updated 6 years ago
- Horizontal gene transfer (HGT) identification pipeline☆71May 17, 2023Updated 3 years ago
- Database and pipeline for protein structure-guided annotations of ecologically relevant functions at the metagenome scale.☆33Nov 2, 2025Updated 8 months ago
- Fast alignment-free pangenome creation and exploration☆28Apr 16, 2020Updated 6 years ago
- Classify metagenomic contigs as eukaryotic or prokaryotic☆46Feb 17, 2023Updated 3 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Parser for Ghost Koala☆10Aug 23, 2018Updated 7 years ago
- KEGG Module Evaluation Tool☆33Mar 5, 2026Updated 4 months ago
- A comprehensive and intuitive encapsulated OO class system for analyzing bacterial pangenomes in R.☆28Feb 14, 2023Updated 3 years ago
- ☆27Jan 30, 2025Updated last year
- A healthy human gut genome collection☆26Aug 21, 2025Updated 11 months ago
- Python script to upload bins and MAGs to ENA (European Nucleotide Archive)☆24Updated this week
- ☆51May 29, 2026Updated last month
- ☆20Apr 1, 2025Updated last year
- SMETANA: a tool to analyse interactions in microbial communities☆72May 6, 2025Updated last year
- 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.
- A QIIME 2 plugin for interaction with the Greengenes2 database☆33Oct 1, 2024Updated last year
- Bacterial genomes finishing tool for structural insights on draft genomes☆23Sep 22, 2023Updated 2 years ago
- HMM-based identification and categorization of iron genes and iron gene operons in genomes and metagenomes☆68May 9, 2026Updated 2 months ago
- Integrated Network Analysis Pipeline☆19Dec 19, 2024Updated last year
- The Antibiotic Resistance Ontology (ARO) organizes the information describing the ability of a microorganism to withstand the effects of …☆22Oct 2, 2025Updated 9 months ago
- ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then sear…☆31Jan 24, 2025Updated last year
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆19Feb 5, 2022Updated 4 years ago