R package for fetching and parsing data of the Human Microbiome Compendium
☆17May 6, 2026Updated 3 months ago
Alternatives and similar repositories for MicroBioMap
Users that are interested in MicroBioMap are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Temporal Development of the Gut Microbiome in Early Childhood - The TEDDY Study☆11Jul 13, 2018Updated 8 years ago
- Plot microbiome time series in parallel☆27Nov 7, 2023Updated 2 years ago
- Nextflow pipeline for the analysis of metagenomic short reads.☆25Jul 3, 2026Updated last month
- Publically accessible code for DIISCO method☆13Oct 15, 2025Updated 9 months ago
- Build a map of genes present across a set of microbial genomes☆18Jan 23, 2026Updated 6 months 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.
- Metabolic scanning and annotation of Metagenomes☆10Dec 18, 2025Updated 7 months ago
- Analysis scripts for snMultiome project☆16Dec 12, 2024Updated last year
- A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations☆44Apr 4, 2023Updated 3 years ago
- Uses cDBG to count unitigs in bacterial populations☆18Feb 15, 2023Updated 3 years ago
- Predicting Absolute and Relative Abundance by Modeling Efficiency to Derive Intervals and Concentrations☆15Nov 24, 2025Updated 8 months ago
- Gene Absence Presence Identification tool.☆27Mar 28, 2025Updated last year
- This is the supplementary code for CRC-multi-kingdom☆17Nov 8, 2021Updated 4 years ago
- ☆23May 16, 2020Updated 6 years ago
- ☆20Nov 11, 2024Updated last year
- 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.
- Fit LOg-RAtio Lasso regression for compositional covariates☆16Jul 2, 2026Updated last month
- Code and Datasets for paper "Towards early detection of adverse drug reactions: combining pre-clinical drug structures and post-market sa…☆11Jun 3, 2021Updated 5 years ago
- Contains the code and workflow for the bacterial strain definition paper with Kostas Kostantinidis☆14Dec 4, 2023Updated 2 years ago
- vim plugin for DNA sequences and sequencing files (SAM/BAM, PAF, FA/FQ, etc.)☆18Jun 2, 2025Updated last year
- Powerful and robust non-parametric association testing for microbiome data via a zero-inflated quantile approach☆12Mar 21, 2024Updated 2 years ago
- Snakemake template for building reusable and scalable machine learning pipelines with mikropml☆13Feb 26, 2025Updated last year
- ☆57Mar 14, 2024Updated 2 years ago
- R package for searching, downloading and analysis of EBI MGnify metagenomics data☆23Feb 13, 2026Updated 5 months ago
- Protocols, data and code associated with the MK-SpikeSeq method for quantifying the absolute abundances of microbiota samples☆12May 19, 2021Updated 5 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- R package to predict microbial loads☆19Updated this week
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Jun 17, 2022Updated 4 years ago
- RAG application with LangChain and Local LLMs powered by Ollama☆15Jul 29, 2025Updated last year
- Codes and sample data supporting the Dutch Microbiome Project. The preprint is currently available at https://www.biorxiv.org/content/10.…☆37Jun 24, 2021Updated 5 years ago
- R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.☆25Jan 24, 2024Updated 2 years ago
- Order and orientation of complete bacterial genomes☆29Jun 30, 2026Updated last month
- PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes☆26Dec 4, 2023Updated 2 years ago
- All scripts used for the analysis of the twilight of the pan-genome, and scripts available for others to apply similar analysis☆20Mar 30, 2021Updated 5 years ago
- Population analysis PIPEline 🛠🧬☆26Mar 2, 2026Updated 5 months 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.
- This is a repository for CAMPER.☆17Mar 18, 2024Updated 2 years ago
- ☆33Jan 4, 2025Updated last year
- Sample models for the PhysiCell grammar / rules paper☆34Jul 21, 2025Updated last year
- Follow up to Grace Blackwell's 661k dataset, for 2023☆152Jun 10, 2026Updated 2 months ago
- Multi-omics multi-layered network integration and interpretation☆14Oct 15, 2024Updated last year
- Metagenome analysis pipeline☆102Jul 26, 2021Updated 5 years ago
- ☆16Jun 21, 2023Updated 3 years ago