- recipe bioconductor-rnaseqsamplesize
RnaSeqSampleSize
- Homepage:
https://bioconductor.org/packages/3.18/bioc/html/RnaSeqSampleSize.html
- License:
GPL (>= 2)
- Recipe:
RnaSeqSampleSize package provides a sample size calculation method based on negative binomial model and the exact test for assessing differential expression analysis of RNA-seq data. It controls FDR for multiple testing and utilizes the average read count and dispersion distributions from real data to estimate a more reliable sample size. It is also equipped with several unique features, including estimation for interested genes or pathway, power curve visualization, and parameter optimization.
- package bioconductor-rnaseqsamplesize¶
- versions:
2.12.0-0,2.10.0-0,2.8.0-1,2.8.0-0,2.4.1-1,2.4.1-0,2.4.0-0,2.2.0-0,2.0.0-2,2.12.0-0,2.10.0-0,2.8.0-1,2.8.0-0,2.4.1-1,2.4.1-0,2.4.0-0,2.2.0-0,2.0.0-2,2.0.0-1,1.17.0-1,1.16.0-1,1.14.0-0,1.12.0-2- depends bioconductor-biomart:
>=2.58.0,<2.59.0- depends bioconductor-biomart:
>=2.58.0,<2.59.0a0- depends bioconductor-edger:
>=4.0.0,<4.1.0- depends bioconductor-edger:
>=4.0.2,<4.1.0a0- depends bioconductor-keggrest:
>=1.42.0,<1.43.0- depends bioconductor-keggrest:
>=1.42.0,<1.43.0a0- depends bioconductor-recount:
>=1.28.0,<1.29.0- depends bioconductor-recount:
>=1.28.0,<1.29.0a0- depends bioconductor-rnaseqsamplesizedata:
>=1.34.0,<1.35.0- depends bioconductor-rnaseqsamplesizedata:
>=1.34.0,<1.35.0a0- depends bioconductor-summarizedexperiment:
>=1.32.0,<1.33.0- depends bioconductor-summarizedexperiment:
>=1.32.0,<1.33.0a0- depends libblas:
>=3.9.0,<4.0a0- depends libgcc-ng:
>=12- depends liblapack:
>=3.9.0,<4.0a0- depends libstdcxx-ng:
>=12- depends r-base:
>=4.3,<4.4.0a0- depends r-dplyr:
- depends r-ggplot2:
- depends r-ggpubr:
- depends r-heatmap3:
- depends r-matlab:
- depends r-rcpp:
>=0.11.2- depends r-tidyr:
- depends r-tidyselect:
- requirements:
Installation
You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install bioconductor-rnaseqsamplesize and update with:: mamba update bioconductor-rnaseqsamplesize
To create a new environment, run:
mamba create --name myenvname bioconductor-rnaseqsamplesize
with
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).Alternatively, use the docker container:
docker pull quay.io/biocontainers/bioconductor-rnaseqsamplesize:<tag> (see `bioconductor-rnaseqsamplesize/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-rnaseqsamplesize/README.html)
