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The advent of genomic technologies has enabled the generation of two-dimensional or even multi-dimensional high-throughput data, e.g., monitoring multiple changes in gene expression in genome-wide siRNA screens across many different cell types (E Robert McDonald 3rd (2017) <doi:10.1016/j.cell.2017.07.005> and Tsherniak A (2017) <doi:10.1016/j.cell.2017.06.010>) or single cell transcriptomics under different experimental conditions. We found that simple computational methods based on a single statistical criterion is no longer adequate for analyzing such multi-dimensional data. We herein introduce 'ZetaSuite', a statistical package initially designed to score hits from two-dimensional RNAi screens.We also illustrate a unique utility of 'ZetaSuite' in analyzing single cell transcriptomics to differentiate rare cells from damaged ones (Vento-Tormo R (2018) <doi:10.1038/s41586-018-0698-6>). In 'ZetaSuite', we have the following steps: QC of input datasets, normalization using Z-transformation, Zeta score calculation and hits selection based on defined Screen Strength.
Version: | 1.0.1 |
Depends: | R (≥ 2.10) |
Imports: | RColorBrewer, Rtsne, dplyr, e1071, ggplot2, reshape2, gridExtra, mixtools |
Suggests: | knitr, rmarkdown |
Published: | 2022-05-24 |
DOI: | 10.32614/CRAN.package.ZetaSuite |
Author: | Yajing Hao |
Maintainer: | Junhui Li <ljh.biostat at gmail.com> |
License: | GPL-2 | GPL-3 |
NeedsCompilation: | no |
CRAN checks: | ZetaSuite results |
Reference manual: | ZetaSuite.pdf |
Vignettes: |
ZetaSuite |
Package source: | ZetaSuite_1.0.1.tar.gz |
Windows binaries: | r-devel: ZetaSuite_1.0.1.zip, r-release: ZetaSuite_1.0.1.zip, r-oldrel: ZetaSuite_1.0.1.zip |
macOS binaries: | r-release (arm64): ZetaSuite_1.0.1.tgz, r-oldrel (arm64): ZetaSuite_1.0.1.tgz, r-release (x86_64): ZetaSuite_1.0.1.tgz, r-oldrel (x86_64): ZetaSuite_1.0.1.tgz |
Old sources: | ZetaSuite archive |
Please use the canonical form https://CRAN.R-project.org/package=ZetaSuite to link to this page.
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.
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