basal.vs.lp: basal.vs.lp from Bioconductor workflow RNAseq123

In abbvie-external/OmicNavigator: Open-Source Software for 'Omic' Data Analysis and Visualization

basal.vs.lp from Bioconductor workflow RNAseq123

Description

A subset of the object basal.vs.lp from Bioconductor workflow RNAseq123.

Usage

basal.vs.lp

Format

A data frame with 24 rows and 8 columns:

ENTREZID

Entrez ID of mouse gene

SYMBOL

Symbol of mouse gene

TXCHROM

Chromosome location of mouse gene

logFC

Log fold change

AveExpr

Average expression level of the gene across all samples

t

Moderated t-statistic

P.Value

p-value

adj.P.Val

Adjusted p-value

Source

https://bioconductor.org/packages/release/workflows/vignettes/RNAseq123/inst/doc/limmaWorkflow.html

References

Law CW, Alhamdoosh M, Su S, Dong X, Tian L, Smyth GK, Ritchie ME. RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR version 3; peer review: 3 approved. F1000Research 2018, 5:1408 \Sexpr[results=rd]{tools:::Rd_expr_doi("10.12688/f1000research.9005.3")}

Sheridan, J.M., Ritchie, M.E., Best, S.A. et al. A pooled shRNA screen for regulators of primary mammary stem and progenitor cells identifies roles for Asap1 and Prox1. BMC Cancer 2015, 15:221 \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1186/s12885-015-1187-z")}

Examples

  head(basal.vs.lp)
  str(basal.vs.lp)

abbvie-external/OmicNavigator documentation built on April 12, 2025, 12:07 a.m.