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README.md

seqtime

The seqtime R package provides functions to analyse sequencing data time series and to simulate community dynamics.

Installation

To install the development version in R, use

library(devtools)  
install_github("hallucigenia-sparsa/seqtime")  
library(seqtime)  

Tutorials

For a tour of seqtime, see the overview vignette. For examples on network inference with LIMITS and visualization, see the network inference vignette.

Development status

Travis-CI Build Status

Contribute

Contributions are very welcome:

Acknowledgements

Kindly cite this work as follows: Karoline Faust, Franziska Bauchinger, Béatrice Laroche, Sophie de Buyl, Leo Lahti, Alex D Washburne, Didier Gonze, Stefanie Widder, "Signatures of ecological processes in microbial community time series", Microbiome (2018). The seqtime R package. URL: https://github.com/hallucigenia-sparsa/seqtime