Functions for analyzing high throughput sequencing stable isotope probing (HTS-SIP) data. Analyses include high resolution stable isotope probing (HR-SIP), multi-window high resolution stable isotope probing (MW-HR-SIP), and quantitative stable isotope probing (q-SIP).
Version: | 1.3.2 |
Depends: | R (≥ 3.1.2) |
Imports: | igraph (≥ 1.0.1), ape (≥ 4.1), magrittr (≥ 1.5), stringr (≥ 1.0.0), plyr (≥ 1.8.4), dplyr (≥ 0.5.0), tidyr (≥ 0.5.1), ggplot2 (≥ 2.1.0), vegan (≥ 2.4.3), DESeq2 (≥ 1.10.1), phyloseq (≥ 1.19.1), coenocliner (≥ 0.2.2), lazyeval (≥ 0.2.0) |
Suggests: | testthat, knitr, rmarkdown, doParallel |
Published: | 2018-01-25 |
Author: | Nicholas Youngblut [aut], Samuel Barnett [cre, ctb] |
Maintainer: | Samuel Barnett <seb369 at cornell.edu> |
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 heavy-SIP q-SIP Quantifying isotope incorporation |
Package source: | HTSSIP_1.3.2.tar.gz |
Windows binaries: | r-devel: HTSSIP_1.3.2.zip, r-release: HTSSIP_1.3.2.zip, r-oldrel: HTSSIP_1.3.0.zip |
OS X El Capitan binaries: | r-release: not available |
OS X Mavericks binaries: | r-oldrel: HTSSIP_1.2.0.tgz |
Old sources: | HTSSIP archive |
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