A continually expanding collection of microbiome analysis tools
☆19Feb 24, 2022Updated 4 years ago
Alternatives and similar repositories for Microbiome_notes
Users that are interested in Microbiome_notes are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆19Apr 14, 2021Updated 5 years ago
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…☆34Nov 12, 2020Updated 5 years ago
- Short Course to get Bioinformaticians at CRUK-CI up-to-speed on Docker☆12Nov 11, 2016Updated 9 years ago
- ☆12Oct 3, 2023Updated 2 years ago
- SHAMAN is a SHiny application for Metagenomic ANalysis including a bioinformatic workflow, the statistical analysis and multiple visualiz…☆13Feb 5, 2025Updated last year
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Metagenomic species profiling with enhanced coverage of the human gut microbiome☆25May 18, 2024Updated last year
- A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.☆12Oct 30, 2023Updated 2 years ago
- Plann: a command-line application for annotating plastome sequences☆12Aug 5, 2022Updated 3 years ago
- Orchestrating Microbiome Analysis☆108Apr 20, 2026Updated 2 weeks ago
- Metagenomic AnalySis with QUantitative pipEline☆12Apr 24, 2019Updated 7 years ago
- micca - MICrobial Community Analysis☆19Feb 12, 2020Updated 6 years ago
- Notes on ChIP-seq and other-seq-related tools☆26Feb 6, 2026Updated 2 months ago
- A Snakefile to parallelize bwa.☆13Oct 25, 2013Updated 12 years ago
- ☆15Apr 19, 2018Updated 8 years 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.
- Create your own PanViz visualizations☆21Nov 20, 2017Updated 8 years ago
- Tools for extracting individual genomes from metagenomes☆16Dec 4, 2023Updated 2 years ago
- A comprehensive and customizable R package for microbiome analysis.☆24Aug 10, 2025Updated 8 months ago
- A very simple BLAST filtering pipeline☆19Mar 28, 2014Updated 12 years ago
- genomic alignment similarity search tool☆18May 15, 2025Updated 11 months ago
- Grinder is a versatile open-source bioinformatic tool to create simulated omic shotgun and amplicon sequence libraries for all main seque…☆18Aug 30, 2018Updated 7 years ago
- Viral Identification and Discovery - A viral characterization pipeline built in Nextflow.☆11May 19, 2020Updated 5 years ago
- An R interface to the omixer-rpm for turning metagenomic functional profiles into pathway/module profiles☆12Dec 16, 2022Updated 3 years ago
- ☆74Mar 1, 2019Updated 7 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Pipeline for the generation and simulation of personalized Flux Balance Analysis models☆11Feb 14, 2021Updated 5 years ago
- Simplex space operations for compositional data implemented in Python.☆13Feb 17, 2022Updated 4 years ago
- community detection in multiplex networks☆10Apr 23, 2016Updated 10 years ago
- ☆17Feb 6, 2020Updated 6 years ago
- Semi-parametric simulation of bulk and single cell RNA-seq data☆10Nov 17, 2024Updated last year
- Tools for participants in the ICGC-TCGA DREAM Mutation Calling challenge☆15Dec 10, 2015Updated 10 years ago
- ☆34Sep 5, 2024Updated last year
- ☆19Aug 29, 2025Updated 8 months ago
- Reference Phylogeny for Bacterial and Archaeal Genomes☆25Aug 9, 2025Updated 8 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.
- Phylogenetic Isometric Log Ratio☆19Apr 1, 2026Updated last month
- StrainFinder☆30Jul 8, 2018Updated 7 years ago
- Calculates the lowest common ancestors of each query sequence in a Blast result☆32Oct 25, 2017Updated 8 years ago
- Comparison of principal components analysis with diffusion maps on toy data sets and a molecular simulation trajectory☆17Feb 1, 2017Updated 9 years ago
- A list of R environment based tools for microbiome data exploration, statistical analysis and visualization☆118Apr 11, 2023Updated 3 years ago
- Snakemake based framework for NGS data analysis and management☆12May 12, 2024Updated last year
- SNP effect predictor☆11Feb 2, 2016Updated 10 years ago