Speedy versions of phyloseq functions
☆48Apr 21, 2024Updated 2 years ago
Alternatives and similar repositories for speedyseq
Users that are interested in speedyseq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- accessory functions for processing microbial community data☆12Dec 24, 2022Updated 3 years ago
- A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.☆12Oct 30, 2023Updated 2 years ago
- Count Regression for Correlated Observations with the Beta-binomial☆108Nov 13, 2025Updated 6 months ago
- Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data☆23May 16, 2026Updated 3 weeks ago
- Miscellaneous functions for metagenomic analysis.☆54May 14, 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.
- Species richness with high diversity☆68Apr 20, 2026Updated last month
- Various customs functions written to enhance the base functions of phyloseq. Most of them are used in the formation "Métagénomique 16S" p…☆33Oct 29, 2025Updated 7 months ago
- ☆28Feb 27, 2024Updated 2 years ago
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆51Mar 6, 2024Updated 2 years ago
- ☆20Apr 24, 2025Updated last year
- Informatic Sequence Classification Trees☆15Jan 23, 2026Updated 4 months ago
- diversity estimation under ecological networks☆83Jul 29, 2025Updated 10 months ago
- ☆14Apr 4, 2023Updated 3 years ago
- Phylogenetic Organization of Metagenomic Signals (POMS)☆18Dec 19, 2022Updated 3 years 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.
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- Fit LOg-RAtio Lasso regression for compositional covariates☆16Updated this week
- This repo contains the R microshades package, which contains a color blind accessible color palette with 30 unique colors and functions f…☆73Jun 6, 2024Updated 2 years ago
- Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data☆171Sep 4, 2025Updated 9 months ago
- SINA - Reference based multiple sequence alignment☆41Dec 13, 2020Updated 5 years ago
- Predicting Absolute and Relative Abundance by Modeling Efficiency to Derive Intervals and Concentrations☆15Nov 24, 2025Updated 6 months ago
- R package for microbiome biomarker discovery☆199Feb 19, 2025Updated last year
- PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes☆26Dec 4, 2023Updated 2 years ago
- Implementation of CoNet in R☆16Oct 16, 2019Updated 6 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.
- An R package for microbial community analysis in an environmental context☆67Sep 23, 2020Updated 5 years ago
- ☆19Mar 8, 2026Updated 3 months ago
- Transform files to the microtable object with microeco package☆28May 29, 2026Updated last week
- Import qiime2 artifacts to R☆182Dec 12, 2024Updated last year
- Tools for analyzing trees☆13Apr 16, 2025Updated last year
- ☆14Dec 12, 2017Updated 8 years ago
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆91Aug 13, 2024Updated last year
- Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation☆31May 25, 2021Updated 5 years ago
- ☆17May 5, 2026Updated last month
- 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.
- Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat☆50Updated this week
- power estimation for microbiome studies analyzed with pairwise distances and PERMANOVA☆39Nov 24, 2015Updated 10 years ago
- Sequence Taxonomic Assignment by Massive Pairwise Alignments☆14Jun 27, 2023Updated 2 years ago
- Identifying ViRal and Circular content in metAgenomes☆14Dec 13, 2018Updated 7 years ago
- Fantaxtic - Nested Bar Plots for Phyloseq Data☆33Jul 14, 2024Updated last year
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆81Jul 24, 2025Updated 10 months ago
- 2025 RAD microbes boot camp☆16Apr 9, 2026Updated 2 months ago