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.
Contribute
Contributions are very welcome:
- Use issue tracker for feedback and bug reports.
- Send pull requests
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