The hardware and bandwidth for this mirror is donated by dogado GmbH, the Webhosting and Full Service-Cloud Provider. Check out our Wordpress Tutorial.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]dogado.de.

HTSSIP

HTSSIP is an R package for analyzing high throughput sequence data from nucleotide stable isotope probing (DNA- & RNA-SIP) experiments.

Available analyzes

• Identifying community-level isotope incorporatation
  • Ordinations of gradient fraction communities
  • Beta diversity of overlapping gradient fractions
• Identifying isotope incorporators
  • High resolution stable isotope probing (HR-SIP)
  • Multiple window high resolution stable isotope probing (MW-HR-SIP)
  • Quantitative stable isotope probing (q-SIP)

Documentation

All documentation can be found on CRAN.

A good place to start is the HTSSIP introduction vignette.

The manuscript describing HTSSIP is:

Youngblut ND, Barnett SE, Buckley DH (2018) HTSSIP: An R package for analysis of high throughput sequencing data from nucleic acid stable isotope probing (SIP) experiments. PLoS ONE 13(1): e0189616. https://doi.org/10.1371/journal.pone.0189616

References

See References in the HTSSIP introduction vignette.

Installation

To get the current released version from CRAN:

install.packages("HTSSIP") 

To get the current development version from github:

# install.packages("devtools")
devtools::install_github("buckleylab/HTSSIP")

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.