microbiome / miaSimLinks
microbiome data simulation package
☆22Updated 4 months ago
Alternatives and similar repositories for miaSim
Users that are interested in miaSim are comparing it to the libraries listed below
Sorting:
- TAXnomic Profile Aggregation and STAndardisation☆41Updated 2 months ago
- Plot microbiome time series in parallel☆27Updated 2 years ago
- Working with the outputs of sourmash in R☆28Updated 3 weeks ago
- BEAV: Bacterial Element Annotation reVamped☆73Updated 5 months ago
- Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data☆23Updated 3 years ago
- A visualization tool for exploratory data analysis of metagenomic data☆38Updated 3 years ago
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆17Updated 4 years ago
- Speedy versions of phyloseq functions☆48Updated last year
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆25Updated 5 months ago
- functions for analyzing phyloseq data☆28Updated last year
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆55Updated 7 months ago
- R package for microbial pangenomics☆24Updated 3 years ago
- Tools for extracting individual genomes from metagenomes☆16Updated 2 years ago
- ☆62Updated last month
- SHallow shOtGUN profiler☆53Updated 3 years ago
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆50Updated last year
- ☆22Updated 6 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆39Updated 2 years ago
- Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.☆25Updated last year
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles☆42Updated last year
- Phylogenetic Organization of Metagenomic Signals (POMS)☆18Updated 3 years ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆67Updated last year
- This tool estimates the completeness of KEGG pathway modules from the presence or absence of KEGG orthologues (KOs)☆30Updated 2 weeks ago
- Database of genomes integrated from the gut microbiome and other environments☆45Updated 3 years ago
- Amplicon sequence processing workflow using QIIME 2 and Snakemake☆45Updated last month
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆68Updated 3 years ago
- A functional profiler for metagenomes using FracMinHash☆20Updated 6 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆71Updated last month
- Robust Aitchison PCA from sparse count data☆37Updated 3 years ago