NOTE: This repository is not longer maintained. See The buckleylab fork of HTSSIP for the currently maintained version.
HTSSIP is an R package for analyzing high throughput sequence data from nucleotide stable isotope probing (DNA- & RNA-SIP) experiments.
Beta diversity of overlapping gradient fractions
Identifying isotope incorporators
All documentation can be found on CRAN.
A good place to start is the HTSSIP introduction vignette.
The manuscript describing HTSSIP is:
Youngblut, Nicholas D., Samuel E. Barnett, and Daniel H. Buckley. 2017. “HTSSIP: An R Package for Analysis of High Throughput Sequencing Data from Nucleic Acid Stable Isotope Probing (SIP) Experiments.” bioRxiv. doi:10.1101/166009.
References in the HTSSIP introduction vignette.
To get the current released version from CRAN:
To get the current development version from github:
# install.packages("devtools") devtools::install_github("nick-youngblut/HTSSIP")
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