Protocols, data and code associated with the MK-SpikeSeq method for quantifying the absolute abundances of microbiota samples
☆12May 19, 2021Updated 5 years ago
Alternatives and similar repositories for MK-SpikeSeq
Users that are interested in MK-SpikeSeq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Metalign: efficient alignment-based metagenomic profiling via containment min hash☆32Sep 12, 2023Updated 2 years ago
- ☆13Dec 2, 2024Updated last year
- Repository of the integrated mouse gut metagenomic catalog☆20Mar 14, 2022Updated 4 years ago
- Genome-wide gene gain/loss mapping tool using DTL(Duplication-Transfer-Loss) reconciliation method☆17Dec 29, 2022Updated 3 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
- 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.
- Interactive TooManyCells Trees☆14Dec 6, 2024Updated last year
- A whole-genome and alignment-free prokaryotic phylogeny tool☆23Mar 9, 2025Updated last year
- ☆17May 4, 2026Updated 3 weeks ago
- frame-shift correction for long-read (meta)genomics☆33Dec 11, 2023Updated 2 years ago
- A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.☆27Nov 21, 2018Updated 7 years ago
- MegaPath-Nano: Accurate Compositional Analysis and Drug-level Antimicrobial Resistance Detection Software for Oxford Nanopore Long-read M…☆13Jul 2, 2022Updated 3 years ago
- A newly developed metabolic modeling pipeline, SuperCC, which could simulate the performances of different microbiomes.☆27Nov 21, 2025Updated 6 months ago
- Taxonomic classification of viruses at Order and Family level☆21Mar 1, 2023Updated 3 years ago
- Stitch multiple Visium slides together☆16Oct 16, 2025Updated 7 months ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Aug 18, 2017Updated 8 years ago
- Temporal Development of the Gut Microbiome in Early Childhood - The TEDDY Study☆10Jul 13, 2018Updated 7 years ago
- ☆28Feb 27, 2024Updated 2 years ago
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- A Python package for gene-centric taxonomic and functional classification using phylogenetic placement☆26Sep 3, 2024Updated last year
- A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.☆12Oct 30, 2023Updated 2 years ago
- Maximum Likelihood Amplicon Pipeline☆22May 22, 2024Updated 2 years ago
- Powerful and robust non-parametric association testing for microbiome data via a zero-inflated quantile approach☆12Mar 21, 2024Updated 2 years ago
- SARS-CoV-2 Deep Sequencing☆14Apr 22, 2020Updated 6 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.
- A nextflow version of the Wochenende reference metagenome binning and visualization pipeline☆16Mar 4, 2026Updated 2 months ago
- A Python package for obtaining, parsing and exploring biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆51May 5, 2026Updated 3 weeks ago
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆13Jun 30, 2023Updated 2 years ago
- A taxonomic classifier for shotgun metagenomics reads☆11Apr 4, 2025Updated last year
- Removing PCR duplicates for sequencing reads.☆14Sep 8, 2020Updated 5 years ago
- Raspir, the rare species identifier☆11Oct 19, 2023Updated 2 years ago
- Multi-omics multi-layered network integration and interpretation☆14Oct 15, 2024Updated last year
- R and python scripts for correlation-based network analysis☆61May 17, 2020Updated 6 years ago
- ☆13Jan 26, 2025Updated last year
- 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.
- Real-time species-typing visualisation for nanopore data.☆13Apr 11, 2023Updated 3 years ago
- Schloss Lab Tools for Reproducible Microbiome Research 💩☆32Aug 22, 2023Updated 2 years ago
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆74Sep 1, 2022Updated 3 years ago
- ☆18Apr 6, 2022Updated 4 years ago
- Automatically calculate phylogenetic trees from bacterial core genes☆20May 13, 2025Updated last year
- ☆26Nov 5, 2022Updated 3 years ago
- MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.☆16Mar 31, 2022Updated 4 years ago