HTSSIP: High Throughput Sequencing of Stable Isotope Probing Data Analysis

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: 1.4.1
Depends: R (≥ 3.4.0)
Imports: igraph (≥ 1.1.2), ape (≥ 4.1), magrittr (≥ 1.5), stringr (≥ 1.2.0), plyr (≥ 1.8.4), dplyr (≥ 0.7.4), tidyr (≥ 0.7.2), ggplot2 (≥ 2.2.1), vegan (≥ 2.4.0), DESeq2 (≥ 1.16.1), phyloseq (≥ 1.20.0), coenocliner (≥ 0.2.2), lazyeval (≥ 0.2.0)
Suggests: testthat, knitr, rmarkdown, doParallel
Published: 2019-09-13
DOI: 10.32614/CRAN.package.HTSSIP
Author: Nicholas Youngblut [aut], Samuel Barnett [cre, ctb]
Maintainer: Samuel Barnett <seb369 at>
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
Beta diversity ordinations
Quantifying isotope incorporation


Package source: HTSSIP_1.4.1.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): HTSSIP_1.4.1.tgz, r-oldrel (arm64): HTSSIP_1.4.1.tgz, r-release (x86_64): HTSSIP_1.4.1.tgz, r-oldrel (x86_64): HTSSIP_1.4.1.tgz
Old sources: HTSSIP archive

Reverse dependencies:

Reverse imports: SIPmg


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