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. <doi:10.3389/fmicb.2016.00703> 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. <doi:10.1128/AEM.02280-15>
| Version: | 1.0.3 |
| 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 |
| Published: | 2016-11-01 |
| Author: | Nicholas Youngblut [aut, cre], Samuel Barnett [ctb] |
| Maintainer: | Nicholas Youngblut <nyoungb2 at gmail.com> |
| License: | GPL-2 | file LICENSE |
| NeedsCompilation: | no |
| Citation: | HTSSIP citation info |
| Materials: | README NEWS |
| CRAN checks: | HTSSIP results |
| Reference manual: | HTSSIP.pdf |
| Vignettes: |
BD shifts HTSSIP introduction HTS-SIP data simulation MW-HR-SIP Beta diversity ordinations q-SIP Quantifying isotope incorporation |
| Package source: | HTSSIP_1.0.3.tar.gz |
| Windows binaries: | r-devel: HTSSIP_1.0.3.zip, r-release: HTSSIP_1.0.3.zip, r-oldrel: HTSSIP_1.0.3.zip |
| OS X Mavericks binaries: | r-release: HTSSIP_1.0.3.tgz, r-oldrel: not available |
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