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:
- Working with the outputs of sourmash in R☆28Updated 3 weeks ago
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆17Updated 4 years ago
- Plot microbiome time series in parallel☆27Updated 2 years ago
- Phylogenetic Organization of Metagenomic Signals (POMS)☆18Updated 3 years ago
- functions for analyzing phyloseq data☆28Updated last year
- ☆62Updated last month
- BEAV: Bacterial Element Annotation reVamped☆73Updated 5 months ago
- TAXnomic Profile Aggregation and STAndardisation☆41Updated 2 months ago
- Tools for extracting individual genomes from metagenomes☆16Updated 2 years ago
- R package for microbial pangenomics☆24Updated 3 years ago
- Bin Chicken - recovery of low abundance and taxonomically targeted metagenome assembled genomes (MAGs) through strategic coassembly☆71Updated this week
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆25Updated 5 months ago
- This tool estimates the completeness of KEGG pathway modules from the presence or absence of KEGG orthologues (KOs)☆30Updated 2 weeks ago
- Functions to manipulate and visualize microbial community data☆12Updated 2 years ago
- Speedy versions of phyloseq functions☆48Updated last year
- Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data☆23Updated 3 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- A functional profiler for metagenomes using FracMinHash☆20Updated 6 months ago
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆50Updated last year
- MAGinator - Accurate SNV calling and profiling of MAGs☆26Updated 8 months ago
- Materials for the STAMPS 2024 course at the MBL in Woods Hole, MA, USA☆13Updated last year
- ☆21Updated 2 years ago
- Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.☆25Updated last year
- creating reference databases for amplicon sequencing☆46Updated 3 weeks ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆67Updated last year
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles☆42Updated last year
- Metagenomic Estimation of Dietary Intake and Content.☆38Updated last week
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆71Updated last month
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆55Updated 7 months ago
- Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-…☆35Updated last month