Perform HTS-SIP analyses such as high resolution stable isotope probing (HR-SIP), multi-window high resolution stable isotope probing (MW-HR-SIP), and quantitative stable isotope probing (q-SIP). More information on HR-SIP, MW-HR-SIP, and q-SIP can be found in: 1) Pepe-Ranney, Charles, Ashley N. Campbell, Chantal N. Koechli, Sean Berthrong, and Daniel H. Buckley. 2016. "Unearthing the Ecology of Soil Microorganisms Using a High Resolution DNA-SIP Approach to Explore Cellulose and Xylose Metabolism in Soil." Terrestrial Microbiology, 703. 2) Youngblut, Nicholas D., and Daniel H. Buckley. "Evaluating the Accuracy of DNA Stable Isotope Probing". in prep. 3) Hungate, Bruce A., Rebecca L. Mau, Egbert Schwartz, J. Gregory Caporaso, Paul Dijkstra, Natasja van Gestel, Benjamin J. Koch, et al. 2015. "Quantitative Microbial Ecology Through Stable Isotope Probing." Applied and Environmental Microbiology, August, AEM.02280-15.

Maintainer: Nicholas Youngblut <nyoungb2 at gmail.com>

Author(s): Nicholas Youngblut*, Samuel Barnett*

Install package and any missing dependencies by running this line in your R console:

install.packages("HTSSIP")

Depends R (>= 3.1.2)
Imports magrittr(>=1.5), stringr(>=1.0.0), plyr(>=1.8.4), dplyr(>=0.5.0), tidyr(>=0.5.1), ggplot2(>=2.1.0), DESeq2 (>= 1.10.1), phyloseq (>= 1.14.0), coenocliner(>=0.2.2), lazyeval(>=0.2.0)
Suggests testthat, knitr, rmarkdown, doParallel
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Package HTSSIP
Materials
URL
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Version 1.0.3
Published 2016-11-01
License GPL-2 | file LICENSE
BugReports
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NeedsCompilation no
Citation
CRAN checks HTSSIP check results
Package source HTSSIP_1.0.3.tar.gz