This is the development version of cypress; for the stable release version, see cypress.
Cell-Type-Specific Power AssessmentBioconductor version: Development (3.22)
CYPRESS is a cell-type-specific power tool. This package aims to perform power analysis for the cell-type-specific data. It calculates FDR, FDC, and power, under various study design parameters, including but not limited to sample size, and effect size. It takes the input of a SummarizeExperimental(SE) object with observed mixture data (feature by sample matrix), and the cell-type mixture proportions (sample by cell-type matrix). It can solve the cell-type mixture proportions from the reference free panel from TOAST and conduct tests to identify cell-type-specific differential expression (csDE) genes.
Author: Shilin Yu [aut, cre] ORCID: 0000-0002-5494-1960 , Guanqun Meng [aut], Wen Tang [aut]
Maintainer: Shilin Yu <sy597 at georgetown.edu>
Citation (from within R, entercitation("cypress")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("cypress")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("cypress")Follow Installation instructions to use this package in your R session.
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