Pipelines used in the lab.
☆15Mar 26, 2025Updated last year
Alternatives and similar repositories for pipelines
Users that are interested in pipelines are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.☆25Jan 24, 2024Updated 2 years ago
- the toolbox for Microbial and personalized GEM, REactiobiome and community NEtwork modelling☆11Feb 3, 2024Updated 2 years ago
- Supplementary data for co-occurrence manuscript☆10Dec 19, 2019Updated 6 years ago
- Classifiers trained on commonly used variable regions of Prokaryotic 16S rRNA genes☆17Jun 30, 2026Updated 2 months ago
- Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.☆20Oct 21, 2022Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Materials and presentations for the 2021 ISB Virtual Microbiome Series.☆29Mar 8, 2023Updated 3 years ago
- Chimera: A Versatile Metagenomic Classification Tool☆21Aug 16, 2026Updated 2 weeks ago
- Build a map of genes present across a set of microbial genomes☆18Jan 23, 2026Updated 7 months ago
- ☆51Jun 11, 2025Updated last year
- An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within micro…☆273May 13, 2026Updated 3 months ago
- ☆13Jul 16, 2022Updated 4 years ago
- A high-performance in-silico PCR tool for primer matching and product extraction from FASTA and GenBank sequences.☆18Feb 25, 2026Updated 6 months ago
- R package to predict microbial loads☆21Updated this week
- Materials and tutorials for the 2020 ISB Microbiome Course☆31Nov 10, 2022Updated 3 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.
- Metagenomic Estimation of Dietary Intake and Content.☆47Aug 5, 2026Updated 3 weeks ago
- ☆11Mar 4, 2023Updated 3 years ago
- Python interface for running COMETS simulations and analyzing the results☆16May 19, 2026Updated 3 months ago
- ☆34Sep 5, 2024Updated last year
- Higher-Order Co-occurrence☆12Nov 9, 2021Updated 4 years ago
- Training materials for NODES 2021 training on Neo4j Aura☆19Sep 13, 2021Updated 4 years ago
- Python script to upload bins and MAGs to ENA (European Nucleotide Archive)☆24Jul 30, 2026Updated last month
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆29Aug 20, 2025Updated last year
- A Nextflow pipeline for genome and pan-genome annotation☆16Feb 22, 2026Updated 6 months 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.
- ☆11Mar 10, 2024Updated 2 years ago
- GEne Cluster prediction with COnditional random fields.☆87Jul 29, 2026Updated last month
- Files for the Genome Design/Genome Analytics Short-course organized by the SBRG☆10Nov 30, 2021Updated 4 years ago
- From annotated genomes to metabolic screening in large scale microbiotas☆77Jul 27, 2026Updated last month
- Biodiversity Genomics Academy 2023: Understanding k-mers and ploidy using Smudgeplot☆11Sep 12, 2023Updated 2 years ago
- EMBL GEMs: A collection of GEnome-scale Models for bacterial species☆33Mar 5, 2019Updated 7 years ago
- Pangenome Analysis in Prokaryotes Lesson☆13Aug 20, 2024Updated 2 years ago
- A SiLA 2 compliant controller for an Opentrons OT-2 liquid handling robot.☆14Jun 4, 2023Updated 3 years ago
- The Biosynthetic Gene cluster Meta’omics abundance Profiler (BiG-MAP). A command-line tool that is able to profile the abundance and expr…☆35Jan 27, 2026Updated 7 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.
- Strain-level haplotyping for metagenomes with short or long-reads.☆70Apr 10, 2025Updated last year
- A taxonomic classifier for shotgun metagenomics reads☆11Updated this week
- ☆12Dec 26, 2018Updated 7 years ago
- Metagenomics Workshop☆27Nov 23, 2016Updated 9 years ago
- Code and analysis results for the CRC shotgun meta-analysis☆41Sep 28, 2022Updated 3 years ago
- Constraint-Based Reconstruction and EXascale Analysis☆46Oct 23, 2024Updated last year
- a metabologenomic pipeline integrating metabolomic and genomic data to identify novel RiPPs and their BGCs☆12Oct 4, 2021Updated 4 years ago