hallucigenia-sparsa / seqtime
The seqtime R package provides functions to analyse sequencing data time series and to simulate community dynamics
☆21Updated last year
Related projects: ⓘ
- ALDEx_bioc is the working directory for updating bioconductor☆26Updated 8 months ago
- Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data☆20Updated 2 years ago
- Phylogenetic Organization of Metagenomic Signals (POMS)☆19Updated last year
- Speedy versions of phyloseq functions☆45Updated 5 months ago
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles☆33Updated 5 months ago
- accessory functions for processing microbial community data☆12Updated last year
- Functions for compositional analysis of high throughput sequencing☆29Updated 9 months ago
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…☆33Updated 3 years ago
- Phylogenetic Isometric Log Ratio☆19Updated last year
- ☆21Updated 4 years ago
- functions for analyzing phyloseq data☆26Updated last month
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆33Updated last year
- A synthesis of bacterial and archaeal phenotypic trait data☆30Updated 10 months ago
- Non parametric differential abundance tests for microbiome data☆9Updated 3 years ago
- Implementation of CoNet in R☆14Updated 4 years ago
- Plot microbiome time series in parallel☆23Updated 10 months ago
- Repository for R package MetQy (read related publication here: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247936/)☆18Updated 2 years ago
- A microbiome analysis toolkit for R☆18Updated last year
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆17Updated 2 years ago
- microbiome data simulation package☆18Updated last month
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆52Updated 3 weeks ago
- Archive: Data, scripts, and outputs for the Nat. Comm. paper "Analysis of Composition of Microbiomes with Bias Correction". Please check …☆29Updated 3 years ago
- Simple R utilities for working with HMMER☆18Updated last year
- ☆26Updated 6 months ago
- ☆15Updated last year
- ☆46Updated 2 weeks ago
- ☆35Updated 6 years ago
- A comprehensive and customizable R package for microbiome analysis.☆20Updated last year
- 📦BEEM-Static: An R package for inferring microbial interactions based on Lotka-Volterra models☆9Updated 3 years ago
- Materials for the STAMPS 2019 course at the MBL in Woods Hole, MA, USA☆35Updated 4 years ago
- Workshop for NGS'18 conference, Barcelona 2018☆25Updated 5 years ago