Package: qsvaR

Title: Generate Quality Surrogate Variable Analysis for Degradation Correction

Version: 1.9.1

Date: 2024-11-26

Authors@R:

c(

person("Joshua", "Stolz", email = "[email protected]",

role = c("aut"),

comment = c(ORCID = "0000-0001-5694-5247")),

person("Hedia", "Tnani", email = "[email protected]",

role = c("ctb", "cre"),

comment = c(ORCID = "0000-0002-0380-9740")),

person("Leonardo", "Collado-Torres", role = c("ctb"),

email = "[email protected]", comment = c(ORCID = "0000-0003-2140-308X")),

person("Nicholas J.", "Eagles", email = "[email protected]",

role = c("aut"), comment = c(ORCID = "0000-0002-9808-5254"))

)

Description: The qsvaR package contains functions for removing the effect of

degration in rna-seq data from postmortem brain tissue. The package is

equipped to help users generate principal components associated with

degradation. The components can be used in differential expression analysis

to remove the effects of degradation.

License: Artistic-2.0

URL: https://github.com/LieberInstitute/qsvaR

BugReports: https://support.bioconductor.org/t/qsvaR

biocViews: Software, WorkflowStep, Normalization, BiologicalQuestion,

DifferentialExpression, Sequencing, Coverage

Encoding: UTF-8

Roxygen: list(markdown = TRUE)

RoxygenNote: 7.3.2

Suggests:

BiocFileCache,

BiocStyle,

covr,

knitr,

limma,

RefManageR,

rmarkdown,

sessioninfo,

testthat (>= 3.0.0)

Config/testthat/edition: 3

Imports:

dplyr,

sva,

stats,

ggplot2,

rlang,

methods

Depends:

R (>= 4.2),

SummarizedExperiment

LazyData: true

VignetteBuilder: knitr