hallucigenia-sparsa / seqtimeLinks
The seqtime R package provides functions to analyse sequencing data time series and to simulate community dynamics
☆21Updated 2 years ago
Alternatives and similar repositories for seqtime
Users that are interested in seqtime are comparing it to the libraries listed below
Sorting:
- Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data☆24Updated 3 years ago
- Implementation of CoNet in R☆16Updated 5 years ago
- Robust Aitchison PCA from sparse count data☆36Updated 2 years ago
- Functions for compositional analysis of high throughput sequencing☆29Updated last year
- ☆20Updated 5 years ago
- Speedy versions of phyloseq functions☆48Updated last year
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆72Updated 2 years ago
- Archive: Data, scripts, and outputs for the Nat. Comm. paper "Analysis of Composition of Microbiomes with Bias Correction". Please check …☆30Updated 4 years ago
- diversity estimation under ecological networks☆84Updated last week
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆54Updated last month
- functions for analyzing phyloseq data☆28Updated 6 months ago
- ALDEx_bioc is the working directory for updating bioconductor☆28Updated 3 months ago
- Compare different differential abundance and expression methods☆51Updated 3 years ago
- Creating plasmid maps inside ggplot.☆88Updated 8 months ago
- A synthesis of bacterial and archaeal phenotypic trait data☆35Updated last year
- A microbiome analysis toolkit for R☆24Updated last year
- Schloss Lab Tools for Reproducible Microbiome Research 💩☆31Updated last year
- Repository for R package MetQy (read related publication here: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247936/)☆18Updated 3 years ago
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆34Updated 2 years ago
- power estimation for microbiome studies analyzed with pairwise distances and PERMANOVA☆38Updated 9 years ago
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…☆34Updated 4 years ago
- ☆56Updated this week
- Miscellaneous functions for metagenomic analysis.☆50Updated 2 months ago
- Tools for visualising microbial community amplicon data☆67Updated 3 months ago
- SHallow shOtGUN profiler☆54Updated 3 years ago
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles☆38Updated last year
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆77Updated 2 weeks ago
- Non parametric differential abundance tests for microbiome data☆9Updated 4 years ago
- Sparse Cooccurence Network Investigation for Compositional data☆24Updated 9 months ago
- 📦BEEM-Static: An R package for inferring microbial interactions based on Lotka-Volterra models☆9Updated 3 years ago